Robust estimation of location and scatter
Robust Estimation of Location and Scatter
Multivariate Normal Restricted by Affine Constraints
Restricted Statistical Estimation and Inference for Linear
Models
Retistruct - Retinal Reconstruction Program
Generate Disease-Specific Response Signatures from the
LINCS-L1000 Data
Simulating the Molecular Evolutionary Process of Retrotransposon
Recombination
Tools for Type S (Sign) and Type M (Magnitude) Errors
Import Professional Baseball Data from 'Retrosheet'
Import 'Retrosheet' Data as a Structured R Object
Repeated Function Evaluation for Sensitivity Analysis
Argument Table Generation for Sensitivity Analysis
Ratio-of-Uniforms Sampling for Bayesian Extreme Value Analysis
Revealed preferences and microeconomic rationality
Revealed Preferences and Microeconomic Rationality
R Markdown Format for 'reveal.js' Presentations
Connect to Your 'Revenera' (Formerly 'Revulytics') Data
Reverse Engineering Censored, Decoupled Residential Data for
Population Density Estimation
Reverse Engineering Decoupled and Censored Data
Linear Regression Stability to Significance Reversal
Reverse Geocoding with the Photon Geocoder for OpenStreetMap and
Google Maps
Reverse Geocoding with the Photon Geocoder for OpenStreetMap,
Google Maps, and Bing
Shared memory parallel framework for multicore machines
Tools for Computational Revealed Preference Analysis
Data Preparation and Diagnostics for Random Effects Within
Estimator
R wrappers for EXPOKIT; other matrix functions
R Wrappers for EXPOKIT; Other Matrix Functions
Call Rust Code from R using the 'extendr' Crate
Estimate permutation p-values for importance metrics.
Estimate permutation p-values for Random Forest importance
metrics.
Estimate Permutation p-values for Random Forest Importance
Metrics.
Estimate Permutation p-Values for Random Forest Importance
Metrics
Random Forests Model Selection and Performance Evaluation
Random Forests model selection and performance evaluation
Unbiased Variable Importance for Random Forests
R Interface to 'FACTS' on Unix-Like Systems
Downloads and Parses Data from the Department of Federal Revenue
in Brazil
Automatically Generated Fish Drawings via JavaScript
'Programmatic Interface to the 'openfisheries.org' API'
Exploratory Data Analysis for FishNet2 Data
Basic R Interface to the FLANN C++ Library
Basic R Interface to the 'FLANN' C++ Library
FlashText Algorithm for Finding and Replacing Words
Query Plane Tickets using the 'Kiwi' API
R Interface to the 'Flsgen' Neutral Landscape Generator with
Targets on Landscape Indices
Neutral Landscape Generator with Targets on Landscape Indices
Recency, Frequency and Monetary Value Analysis
MarkLogic NoSQL Database Server in-Database Analytics for R
Code examples to accompany the book "R for Dummies"
Code Examples to Accompany the Book "R for Dummies"
BATWING for calculating forensic trace-suspect match
probabilities
BATWING for Calculating Forensic Trace-Suspect Match
Probabilities
Sequential Permutation Testing of Random Forest Variable
Importance Measures
Interactive Visualization Tool for Random Forests
Gabriel Multiple Comparison Test and Plot the Confidence
Interval on Barplot
Interface to the Global Biodiversity Information Facility API
methods
Interface to the Global Biodiversity Information Facility API
Interface to the Global Biodiversity Information Facility 'API'
Interface to the Global 'Biodiversity' Information Facility
'API'
Interface to the Global 'Biodiversity' Information Facility API
Bindings for the Geospatial Data Abstraction Library
Bindings for the 'Geospatial' Data Abstraction Library
Wrapper for 'GDAX' Cryptocurrency Exchange
Wrapper for 'Coinbase Pro (GDAX)' Cryptocurrency Exchange
Wrapper for 'Coinbase Pro (erstwhile GDAX)' Cryptocurrency
Exchange
R Bindings for Calling the 'Earth Engine' API
Search, Composite, and Download 'Google Earth Engine' Imagery
with the 'Python' Module 'geedim'
Random Sampling Distribution C++ Routines for Armadillo
R version of GENetic Optimization Using Derivatives
R Version of GENetic Optimization Using Derivatives
Geographic Profiling Methods for Serial Crime Analysis
Interface to Geometry Engine - Open Source (GEOS)
Interface to Geometry Engine - Open Source ('GEOS')
Wrapper for the Geospatial Data Quality REST API
An R library to build GEXF network files
Build, Import and Export GEXF Graph Files
Robustified methods for Gaussian Graphical Models
Access WHO Global Health Observatory Data from R
R Interface to Global Biotic Interactions
R interface to Global Biotic Interactions
Extension of the 'rgl' 3D Visualization Package
Easy Access to the Canadian Open Government Portal
R Interface for the GPlates Web Service and Desktop Application
UI for the RGP genetic programming framework
The GSC (Geological Survey of Canada) Applied Geochemistry EDA
Package
The GSC Applied Geochemistry EDA Package
The GSC (Geological Survey of Canada) Applied Geochemistry EDA Package
Representing Graphs as 'graph6', 'digraph6' or 'sparse6' Strings
Interface Between 'GRASS' Geographical Information System and
'R'
Interface Between GRASS 7 Geographical Information System and R
Interface Between GRASS Geographical Information System and R
Deprecated Interface Between GRASS Geographical Information
System and R
Consult 'Grass GIS' Documentation in the RStudio Viewer or your
Browser
Functions to make R usage in social sciences easier (in french)
Functions to make R usage in social sciences easier (package documentation in french)
Repetitive Group Sampling Plan Based on Cpk
Search and Retrieve Spatial Data from 'GUGiK'
Interface to the 'Handsontable.js' Library
Robust Hierarchical Co-Clustering to Identify Significant
Co-Cluster
A Zero Dependency 'SVG' Icon Library for 'Shiny'
Clustering Genetic Sequence Data Using the HierBAPS Algorithm
A Framework for Enterprise Shiny Applications
An R Implementation of the FIS MarketMap C-Toolkit
Random Heteroscedastic Nested Error Regression
Side effect risks in hospital : simulation and estimation
Side Effect Risks in Hospital : Simulation and Estimation
Wrapper for the 'Datamuse' API to Find Rhyming and Associated
Words
ri: R package for performing randomization-based inference for
experiments
Randomization Inference for Randomized Experiments
A Flexible Approach for Causal Inference with Multiple
Treatments and Clustered Survival Outcomes
An Implementation of 'Interactive Brokers' API
Utilities from and Interface to the Bioinfo-C (BIOS) Library
Gene Annotation of Rice (Oryza Sativa L.spp.japonica)
Convert Biological ID from RAP or MSU to SYMBOL for Oryza Sativa
Species richness estimation and comparison
Computes and compares species richnesses
Computes and Compares Species Richnesses
ridge: Ridge Regression with automatic selection of the penalty
parameter
Ridge Regression with automatic selection of the penalty
parameter
Ridge Regression with Automatic Selection of the Penalty
Parameter
Accesses Weather Data from the Iowa Environment Mesonet
Client for 'Neuroscience' Information Framework 'APIs'
Regression, Inference, and General Data Analysis Tools in R
An R Interface to the 'Tiingo' Stock Price API
Create Colour Palettes Based on Famous Artworks from the
Rijksmuseum
R's Interface to Maxima, Bringing Symbolic Computation into R
Access iNaturalist data through their API
An R Wrapper of the 'Inform' C Library for Information Analysis
of Complex Systems
Ring buffer (circular buffer) data structure
View Images on Full Screen in 'RMarkdown' Documents and 'shiny'
Applications
An R package for the analysis of Quaternary science data
Calculate Persistent Homology with Ripser-Based Engines
A fast cryptographic random number generator using ISAAC by
Robert Jenkins.
G-Computation to Estimate Interpretable Epidemiological Effects
Assessing Risk Predictions for Clustered Data
Risk regression models for survival analysis with competing
risks
Risk Regression Models for Survival Analysis with Competing
Risks
Risk Regression Models and Prediction Scores for Survival
Analysis with Competing Risks
Risk Quantification for Stock Portfolios under the T-Copula
Model
Functions to Study Etiologic Heterogeneity
Riskset ROC curve estimation from censored survival data
Riskset ROC Curve Estimation from Censored Survival Data
Rendering Risk Literacy more Transparent
Integrated Taxonomic Information System Client
Common Fragmentation and Connectivity Indices for Riverscapes
River Network Distance Computation, and Applications
River Network Distance Computation and Applications
Steady and Unsteady Open-Channel Flow Computation
A Clean, Whitespace-Sensitive Template Language for Writing HTML
'rmarkdown' Extension for Formatted 'RJDemetra' Outputs
Quality Assessment for Seasonal Adjustment
Miscellaneous Useful Functions for Statistics
Consumer for APIs that Follow the JSON API Specification
'C++' Header-Only 'jsoncons' Library for 'JSON' Queries
Preparing, Checking, and Submitting Articles to the 'R Journal'
Interface to the 'JWSACruncher' of 'JDemetra+'
Using Apache 'Kafka' Messaging Queue Through 'R'
External Jars Required for Package 'rkafka'
Kernel Operations on the GPU, with Autodiff, without Memory
Overflows
Kernel Operations on GPU or CPU, with Autodiff, without Memory
Overflows
Random KNN Classification and Regression
Mann-Kendall test, Seasonal and Regional Kendall Tests
Mann-Kendall Test, Seasonal and Regional Kendall Tests
Generates random landscapes with specifiable spatial
characteristics
Functions for Base Types and Core R and 'Tidyverse' Features
Read and Write 'las' and 'laz' Binary File Formats
Read and Write 'las' and 'laz' Binary File Formats Used For
Remote Sensing Data
Read and Write 'las' and 'laz' Binary File Formats Used for
Remote Sensing Data
Create Interactive Linked Charts with Minimal Code
Robust Likelihood Cross Validation Bandwidth Selection
Analyze and Design Repeated Low-Dose Challenge Experiments
Common Functions for Run-Length Encoded Vectors
R interface to RNG with multiple streams
R Interface to RNG with Multiple Streams
Simulations and Statistical Inference for Linear Fractional
Stable Motions
Kriging Models using the 'libKriging' Library
Linked Inference of Genomic Experimental Relationships
A set of tools for working with list objects
A Toolbox for Non-Tabular Data Manipulation
A Toolbox for Non-tabular Data Manipulation
Robust Regression with Data Driven Tuning Parameter
Rank-based Estimation and Prediction in Random Effects Nested
Models
Rank-Based Estimation and Prediction in Random Effects Nested
Models
Utilities for Writing to 'LibreOffice Writer' Documents
Performing Bayesian Inference for Repeated-Measures Designs
RNA-Seq Analysis for Repeated-Measures Data
Exact Confidence Intervals for Random Effects Meta-Analyses
calculate RMAC or FMAC agreement coefficients
Makefile Generator for R Analytical Projects
Client for 'mapshaper' for 'Geospatial' Operations
Client for 'Mapzen' and Related Map APIs
Calculate 3D Contour Meshes Using the Marching Cubes Algorithm
The MCFS-ID Algorithm for Feature Selection and Interdependency
Discovery
Easily Install and Load the R Markdown Family
Multiple Discrete-Continuous Extreme Value (MDCEV) Model
Kuhn-Tucker and Multiple Discrete-Continuous Extreme Value
Models
HTML Output Formats and Templates for 'rmarkdown' Documents
Partial 'rmarkdown' Documents to Prettify your Reports
'R' 'Markdown' Format for 'shower' Presentations
Count Words, Chars and Non-Whitespace Chars in R Markdown Docs
R Implementation of the Metalog Distribution
An individual-based population genetic simulation environment
An Individual-Based Population Genetic Simulation Environment
Simpler use of data mining methods (e.g. NN and SVM) in
classification and regression.
Data Mining Classification and Regression Methods
Derivative-Free Optimization in R using C++
R interface to the Java Chinese word segmentation system of
mmseg4j
Miscellaneous Collection of Functions for Medical Data Analysis
Rounded Mixture Package. Performs probability mass function
estimation with Dirichlet process mixtures of rounded kernels
Rounded Mixture Package. Performs Probability Mass Function
Estimation with Nonparametric Mixtures of Rounded Kernels
Causal Mediation Analysis Using Weighting Approach
Root-mean-square goodness-of-fit test for simple null hypothesis
Amazing Random Facts About the World's Greatest Hacker
Quickly View Data Frames in Excel, Build Folder Paths and Create
Date Vectors
Quickly View Data Frames in 'Excel', Build Folder Paths and
Create Date Vectors
Restricted Mean Time in Favor of Treatment
Utilities for Nonlinear Regression and Repeated Measurements
Models
Tools to Conduct Meteorological Normalisation on Air Quality
Data
Creation, Reading and Validation of 'mzqc' Files
Wrapper for several R packages and scripts to automate RNA-seq
analysis
Access Data from the NASS 'Quick Stats' API
World Vector Map Data from Natural Earth Used in 'rnaturalearth'
Wrapper for the National Bank of Poland API
Fast Network Modularity and Roles Computation by Simulated
Annealing (Rgraph C Library Wrapper for R)
Initialization of the R base random number generator
Mersenne-Twister with a vector of an arbitrary length.
Seeding the Default RNG With a Numeric Vector
Seeding the Default RNG with a Numeric Vector
toolbox for WELL random number generators.
Toolbox for WELL Random Number Generators
Utility functions for working with Random Number Generators
Utility Functions for Working with Random Number Generators
WELL19937a random number generator implemented with 53 bit
output
Random number generator WELL19937a with 53 or 32 bit output
Bayesian Network Meta-Analysis with Missing Participants
Interface to the National 'Phenology' Network 'API'
UK National River Flow Archive data from R
UK National River Flow Archive Data from R
Find Free Versions of Scholarly Publications via the oaDOI
Service
Find Free Versions of Scholarly Publications via Unpaywall
Robust Analysis of High Dimensional Data
Robust Estimation for Compositional Data.
Robust Estimation for Compositional Data
Using Block Model to Estimate the Robustness of Ecological
Network
Conditionally Unbiased Bounded Influence Estimates
Robust Bayesian Variable Selection for Gene-Environment
Interactions
Forecasting Time Series with Robust Exponential Smoothing
Ocean Biogeographic Information System (OBIS) Client
Ocean Biodiversity Information System (OBIS) Client
Robust Generalized Linear Models (GLM) using Mixtures
Robust Nonparametric Two-Sample Tests for Location/Scale
Robustness Checks for Omitted Variable Bias
A 'robots.txt' Parser and 'Webbot'/'Spider'/'Crawler'
Permissions Checker
Three-Step Regression and Inference for Cellwise and Casewise
Contamination
Robust Regression with Compositional Covariates
Import an Observable Notebook as HTML Widget
Outlier Robust Two-Stage Least Squares Inference and Testing
Robust Bayesian Linear Mixed-Effects Models using ABC
Robust Methods using Exponential Tilt Model
Robust methods for high-dimensional data
Robust Methods for High-Dimensional Data
Perform the Robust Multivariable Mendelian Randomization
Analysis
Robust Clustering of Single Cell RNA-Seq Data
eXperimental eXtraneous eXtraordinary ... Functionality for
Robust Statistics
eXperimental Functionality for Robust Statistics
'eXtra' / 'eXperimental' Functionality for Robust Statistics
Collection of Robust Covariance and (Sparse) Precision Matrix
Estimators
An Object Oriented Framework for Robust Factor Analysis
An Object Oriented Solution for Robust Factor Analysis
Robust Estimation for Generalized Additive Models
Robust Variable Selection with Exponential Squared Loss
Robust estimation of the generalized log gamma model.
Robust Estimation of the Generalized log Gamma Model
Robust Inference for Meta-Analysis with Influential Outlying
Studies
An Extended Rao-Stirling Diversity Index to Handle Missing Data
Robust Estimation for Seemingly Unrelated Regression Models
Robust Estimation of Variance Component Models.
Robust Estimation of Variance Component Models
Visualize the Results of Risk-of-Bias (ROB) Assessments
Non-Inferiority Test for Paired ROC Curves
Receiver Operating Characteristic (ROC)-Guided Classification
and Survival Tree
Statistical Inference for Box-Cox Based Receiver Operating
Characteristic Curves
Functions for Diffusing Function Documentations into 'Roxygen'
Comments
Work with Romanian Personal Numeric Codes PNC / CNP
RObust rank COrrelation COefficient and test
Robust Rank Correlation Coefficient and Test
ROC, Precision-Recall, Convex Hull and other plots.
Convenience Functions for Applying Basic Stats to Sub-Groups
Fast Rolling and Expanding Window Linear Regression
R Markdown Output Formats for Storytelling
Construct Consistent Time Series from Textual Data
Convert Colour Specification to Colour Name
A Colour List and Colour Metric Based on the ISCC-NBS System of
Color Designation
Finding Optimal Three-Group Splits Based on a Survival Outcome
Nonlinear root finding, equilibrium and steady-state analysis of ordinary differential equations
Nonlinear root finding, equilibrium and steady-state analysis of
ordinary differential equations
Nonlinear Root Finding, Equilibrium and Steady-State Analysis of
Ordinary Differential Equations
Distribution of Largest Root for Single and Double Wishart
Settings
Model Selection with FDR Control of Selected Variables
Accesses Air Quality Data from the Open Data Platform OpenAQ
Download, Compile and Link 'OpenBLAS' Library with R
Query and Download 'Rapid7' 'Cybersecurity' Data Sets
Additional Operators to Help you Write Cleaner R Code
Reproducible Data Retrieval from the Roper Center Data Archive
Low-Level Support for Provenance Capture Between in-Memory R
Objects
General Purpose Optimization in R using C++
Parallel Use of Statistical Packages in Teaching
Plot Raster Map Tiles from Open Street Map and Other Sources
Robust Sparse PCA using the ROSPCA Algorithm
Tests for Rotational Symmetry on the Hypersphere
Interface to the 'Open Tree of Life' API
Roughened Random Forests for Binary Classification
A Simple Router for HTTP and WebSocket Requests
Royston's H Test: Multivariate Normality Test
Confirmatory Adaptive Clinical Trial Design and Analysis
Simple interactive controls for R using the tcltk library.
Simple Interactive Controls for R Using the tcltk Package.
Simple Interactive Controls for R using the 'tcltk' Package
Recursive Partitioning and Regression Trees
Least Absolute Deviation Regression Trees
Plot rpart models.  An enhanced version of plot.rpart.
Plot rpart Models.  An Enhanced Version of plot.rpart
Plot 'rpart' Models: An Enhanced Version of 'plot.rpart'
Tools for parsing and manipulating rpart objects, including
generating machine readable rules.
Classification trees for ordinal responses
Classification Trees for Ordinal Responses
Recognising Visual Charting Patterns in Time Series Data
RobustPCA: Decompose a Matrix into Low-Rank and Sparse
Components
Tools for the Construction of Clinical Code Lists for Primary
Care Database Studies
Easy interface to advanced PostgreSQL features
Easy Interface to Advanced PostgreSQL Features
Fast Simulation of Normal Random Variables
Fast Simulation of Normal/Exponential Random Variables and
Stochastic Differential Equations
Fast Simulation of Normal/Exponential Random Variables and
Stochastic Differential Equations / Poisson Processes
R interface to PHAST software for comparative genomics
Interface to PHAST Software for Comparative Genomics
Interface to 'PHAST' Software for Comparative Genomics
Get 'Silhouettes' of 'Organisms' from 'Phylopic'
Build Powerful Pivot Tables and Dynamically Slice & Dice your
Data
Read and Analyze PLEXOS Solutions from R
Read and analyze PLEXOS solutions from R
Interface to PLoS Journals search and altmetrics API's
Interface to the Search API for the 'PLoS' Journals
Interface to the Search 'API' for 'PLoS' Journals
Interface to the Search API for 'PLoS' Journals
Bayesian Age-Depth Modelling of '210Pb'-Dated Cores
Bayesian Age-Depth Modelling of Cores Dated by Pb-210
Recursive Partitioning for Modeling Survey Data
Converter and Interpreter for Reverse Polish Notation
Expressions
Managing Animal Movement Data with 'PostGIS' and R
Access the Global Plant Phenology Data Portal
Regularized PQL for Joint Selection in GLMMs
Estimating Disease Prevalence from Registry Data
Functions for Working with 'Eprime' Text Files
Create Folders and Files Structure for Data Science Projects
Rank Preserving Structural Failure Time Models
Repeatability Estimation for Gaussian and Non-Gaussian Data
rpubchem - Interface to the PubChem Collection
R interface to PVM (Parallel Virtual Machine)
Easy to Configure an Isolated 'Python' Environment
R Package for Penalized Quantile Regression
Markov Chain Marginal Bootstrap for Quantile Regression
Relational Query Generator for Data Manipulation
Relational Query Generator for Data Manipulation at Scale
Statistical Methods for the Randomized Response Technique
Genomic selection and association analysis
Ridge Regression-BLUP and related methods for genomic selection
Ridge regression-BLUP and related methods for genomic selection
Ridge Regression and kernel methods for genomic selection
Ridge regression and other kernels for genomic selection
Ridge Regression and Other Kernels for Genomic Selection
Re-parametrization of RR-BLUP to allow for a fixed residual
variance
Robust Regression with Asymmetric Heavy-Tail Noise Distributions
Scalable Robust Estimators with High Breakdown Point
Robust Methods for Multiway Data Analysis, Applicable also for
Compositional Data
Robust multivariate Methods for High Dimensional Data
Robust Multivariate Methods for High Dimensional Data
Scalable Robust Estimators with High Breakdown Point for
Incomplete Data
Import Data from a RRD (Round Robin Database) File
rrdf - support for the Resource Description Framework
rrdflibs - package with Jena libraries for use with rrdf
rrdflibs - package with Jena and Apache HTTP libraries for use
with rrdf
Environment for Assessing Recommender Systems
Environment for Evaluating Recommender Systems
Visualization for Norwegian Health Quality Registries
Invoke 'Repast Simphony' Simulation Models
Realized Relatedness Estimation and Simulation
Predefined Bayes models fitted with Markov chain Monte Carlo
(MCMC) (related to the 'rrisk' project)
Collection of functions for fitting distributions (related to
the 'rrisk' project)
Fitting distributions to given data or known quantiles
Fitting Distributions to Given Data or Known Quantiles
Robust Regularized Linear Discriminant Analysis
Access Publisher Copyright & Self-Archiving Policies via the
'SHERPA/RoMEO' API
Robust Re-Scaling to Better Recover Latent Effects in Data
Reproducible Research with a Table of R Codes
Bayesian Estimation of the Reduced Reparameterized Unified Model
with Gibbs Sampling
Bayesian Models for Remotely Sensed Data
Guidelines for the use of Remote Sensing in Movement Ecology
Dealing with Multiplatform Satellite Images
Tools, Classes, and Methods for Interfacing with SaTScan
Stand-Alone Software
Part Information from the Registry of Standard Biological Parts
Bi-Directional Interface Between R and Scala with Callbacks
Bi-Directional Interface Between 'R' and 'Scala' with Callbacks
Bridge Between 'R' and 'Scala' with Callbacks
R Source Code Similarity Evaluation by Similarity Coefficients
R Source Code Similarity Evaluation by Variable/Function Names
A Scraper for Scientific Journals Hosted on Scielo
SciMark 2.0 Benchmark for Scientific and Numerical Computing
Deployment Interface for R Markdown Documents and Shiny
Applications
Generic implementation of the 'RStudio' connections contract
A Method to Download Department of Education College Scorecard
Data
provides portable C-style interface to R (StatConnector)
statconn: provides portable C-style interface to R
(StatConnector)
Response Surface Designs with Neighbour Effects (rsdNE)
Ray Shooting Depth (i.e. RS Depth) functions for bivariate
analysis
Ray Shooting Depth (i.e. RS Depth) Functions for Bivariate
Analysis
A package to read SDMX data and metadata
Tools for reading SDMX data and metadata
Tools for Reading SDMX Data and Metadata
Estimation of Proportion of GM Stacked Seeds in Seed Lots
Estimating the proportion of genetically modified stacked seeds
in seedlots via multinomial group testing
Estimating the Proportion of Genetically Modified Seeds in
Seedlots via Multinomial Group Testing
Robust Structural Equation Modeling with Missing Data and
Auxiliary Variables
Strain Elevation Tension Spring Embedding
Report of Statistical Findings in 'bookdown'
Gini methodology-based correlation and clustering analysis of
both microarray and RNA-Seq gene expression data
Gini methodology-based correlation and clustering analysis of
microarray and RNA-Seq gene expression data
Robust Sparse Gaussian Graphical Modeling via the
Gamma-Divergence
Paleoecology Functions for Regime Shift Analysis
Robust Signature Selection for Survival Outcomes
Analysis of Simulation Studies Including Monte Carlo Error
Download Data from Mexico's Air Quality Information System
Create Custom 'Rstudio' Keyboard Shortcuts
A Stemming Algorithm for the Portuguese Language
Submit R Calculations to a 'SLURM' Cluster
Submit R Calculations to a Slurm Cluster
Submit R Calculations to a 'Slurm' Cluster
Root System Markup Language (RSML) file processing
Plant Root System Markup Language (RSML) File Processing
Get SNP (Single-Nucleotide Polymorphism) data on the web.
Get SNP (Single-Nucleotide Polymorphism) Data on the Web
Get 'SNP' ('Single-Nucleotide' 'Polymorphism') Data on the Web
El Nino/Southern Oscillation (ENSO) Index
El Nino/Southern Oscillation (ENSO) and Related Climate Indices
Import Various Northern and Southern Hemisphere Climate Indices
Adapt numerical records to fit (in)equality restrictions with
the Successive Projection Algorithm
Adapt Numerical Records To Fit (In)Equality Restrictions
Adapt Numerical Records to Fit (in)Equality Restrictions
Calculate SPEARpesticide in R
(http://www.systemecology.eu/SPEAR/index.php)
R's Shortest Path Problem with Forbidden Subpaths
Identify Distributions that Match Reported Sample Parameters
(SPRITE)
R interface to SPRNG (Scalable Parallel Random Number Generators)
R interface to SPRNG (Scalable Parallel Random Number
Generators)
Client Library for SpatioTemporal Asset Catalog
Persistent Fast Amortized Stack and Queue Data Structures
Bayesian Applied Regression Modeling via Stan
Tools for Developing R Packages Interfacing with 'Stan'
Spatial Temporal Aggregated Predictor Models via 'stan'
Pipe-Friendly Framework for Basic Statistical Tests
Random orthonormal matrix generation on the Stiefel manifold
Random Orthonormal Matrix Generation and Optimization on the
Stiefel Manifold
Smooth Survival Models, Including Generalized Survival Models
Generating Simulated Data Mimicking Response Styles to Survey
Questions
Interface to 'Sunlight' Foundation 'APIs'
Design of Rotatable Central Composite Experiments and Response
Surface Analysis
Robust Singular Value Decomposition using Density Power
Divergence
Render SVG Images into High-Quality Bitmap Arrays
Render SVG Images into PDF, PNG, PostScript, or Bitmap Arrays
Render SVG Images into PDF, PNG, (Encapsulated) PostScript, or
Bitmap Arrays
Extract Semantic Relations from Text by Querying and Reshaping
Syntax
Manage and manipulate large collections of R objects stored as
tape-like files
R Templates for Reproducible Data Analyses
R Transcription Factor Binding Site identification tool
Transcription Factor Binding Site Identification Tool
Supports the Analysis of RTI MicroPEM Output Files
Inequality, Welfare and Poverty Indices and Curves using the
EU-SILC Data
STK++ Core Library Integration to R using Rcpp
'STK++' Core Library Integration to 'R' using 'Rcpp'
Create and Manage Todolist using 'Todoist.com' API
Interpolation of data with variable spatial support
Interpolation of Data with Variable Spatial Support
Datasets and Functions Relating to Star Trek
Analyze Download Logs from the CRAN RStudio Mirror
A Simple R-Based Implementation of a Trie (A.k.a. Digital
Tree/Radix Tree/Prefix Tree)
Bayesian Inference from the Conditional Genetic Stock
Identification Model
Implementation of Unobserved Components Model (UCM) in R
Implementation of Unobserved Components Model (UCM)
Learn Text 'Embeddings' with 'Starspace'
Univariate GARCH-MIDAS, Double-Asymmetric GARCH-MIDAS and
MEM-MIDAS
Automatically Plot, Analyse and Revises Limits of Multiple Run
Charts
Softball Run Expectancy using Markov Chains and Simulation
Convert 'RUnit' Test Functions into 'testthat' Tests
Run Bayesian MCMC Models in the BUGS syntax from Within R
Interface utilities for JAGS (using BUGS syntax) and Apple Xgrid
distributed computing clusters
Interface utilities for MCMC models in Just Another Gibbs
Sampler (JAGS) using parallel and distributed computing methods
Interface utilities, parallel computing methods and additional
distributions for MCMC models in JAGS
Interface Utilities, Model Templates, Parallel Computing Methods
and Additional Distributions for MCMC Models in JAGS
Fast Computation of Running Statistics for Time Series
Beautiful Graphical Representation of Multiplication Tables on a
Modular Circle
Implementation of Unsupervised Neural Architectures
Detect and Remove Unwanted Variation using Negative Controls
Simulation-based random variable object class in R
Calling haplotype-based and variant-based pedigree
disequilibrium test for rare variants in pedigrees.
Calling Haplotype-Based and Variant-Based Pedigree
Disequilibrium Test for Rare Variants in Pedigrees
population control weighted rare-variants TDT
Computation of r-values for ranking in high-dimensional
settings.
R-values for Ranking in High-Dimensional Settings
R-Values for Ranking in High-Dimensional Settings
Query R Versions, Including r-release and r-oldrel
Query 'R' Versions, Including 'r-release' and 'r-oldrel'
Search VertNet, a Database of Vertebrate Specimen Records
Search 'Vertnet', a 'Database' of Vertebrate Specimen Records
R Graphics Devices for Vector Graphics Output
Tools for Analyzing Non-Uniform Pseudo-Random Variate Generators
High Performance Algorithms for Vine Copula Modeling
Radial Velocity Method for Detecting Exoplanets
Import and Handling for 'WhatsApp' Chat Logs
Chinese Character Frequency in Real World
R We There Yet? Visualizing MCMC Convergence in Phylogenetics
Combined Total and Allele Specific Reads Sequencing Study
Parsing and Code Generation Functions for 'rxode2'
Random Number Generation Functions for 'rxode2'
Companion to the Forthcoming Book - R you Ready?
Grain size analysis, textural classifications and distribuition
of uncosolidated sediments.
Grain size analysis, textural classifications and distribution
of unconsolidated sediments
R binding for zmq (http://www.zeromq.org/)
Google's S2 Library for Geometry on the Sphere
Spherical Geometry Operators Using the S2 Geometry Library
Functions for University of Auckland course STATS 201/208 Data
Analysis
Functions for University of Auckland Course STATS 201/208 Data
Analysis
A Set of Common Tools for Seasonal to Decadal Verification
Set of common tools for model diagnostics.
Set of Common Tools for Forecast Verification
Set of Common Tools for Model Diagnostics
Biclustering via sparse singular value decomposition
incorporating stability selection
Biclustering via Sparse Singular Value Decomposition
Incorporating Stability Selection
Akaike Information Criterion for Sparse Estimation
Computing the Singular BIC for Multiple Models
R Toolbox for Unsupervised Spectral Clustering
Maximum Likelihood Estimation and Likelihood Ratio Test
Functions for Separable Variance-Covariance Structures
Calculates the historic date of extinction given a series of
sighting events
Sequential Full Factorial-Based Latin Hypercube Design
Survival Extension of the Generalized Berk-Jones Test
Sparse Gaussian Markov Random Field Mixtures for Anomaly
Detection
Sparse Generalized Principal Component Analysis
Assessment of Diagnostic and Prognostic Markers
Analysis of Small RNA Expression Changes in Hybrid Plants
Nonparametric Smooth ROC Curves for Continuous Data
Tools Developed for Structured Sufficient Dimension Reduction
(sSDR)
Measures of the Sturdiness of Regression Coefficients
Somatic Copy Number Alteration Analysis Using Sequencing and SNP
Array Data
Background Removal and Spectrum Identification for SERS Data
Provides SABRE functionality from within R
Multivariate Generalized Linear Mixed Models
Detection of Fixations in Eye-Tracking Data
Extract Saccades via an Ensemble of Methods Approach
Verify the Scale, Anisotropy and Direction of Weather Forecasts
Maximum Likelihood Models for Species Abundance Distributions
Small Area Estimation using Fay-Herriot Models with Additive
Logistic Transformation
Small Area Estimation: Time-series Models
Small Area Estimation: Time-Series Models
Selecting Auxiliary Variables in Small Area Estimation (SAE)
Model
Small Area Estimation using Hierarchical Bayesian Method
Small Area Estimation with Measurement Error using Hierarchical
Bayesian Method
Small Area Estimation under ZIB Distribution using Hierarchical
Bayesian
Small Area Estimation using Hierarchical Bayesian under Zero
Inflated Binomial Distribution
SAE using HB Method under Generalized Poisson Distribution
Small Area Estimation under Hurdle Negative Binomial
Distribution using Hierarchical Bayesian Method
Small Area Estimation using Hierarchical Bayesian Method for Rao
Yu Model
Small Area Estimation under Spatial SAR Model using Hierarchical
Bayesian Method
Hierarchical Bayes Twofold Subarea Level Model SAE
Small Area Estimation using Hierarchical Bayesian under Zero
Inflated Negative Binomial Distribution
Small Area Estimation with Measurement Error
Compute MSPE Estimates for the Fay Herriot Model and Nested
Error Regression Model
Simulation Tools for Small Area Estimation
Transformations for Unit-Level Small Area Models
Small Area Estimation using Empirical Bayes without Auxiliary
Variable
Small Area Estimation Non-Parametric Based Nadaraya-Watson
Kernel
Stochastic Approximation Expectation Maximization (SAEM)
algorithm
Stochastic Approximation Expectation Maximization (SAEM)
Algorithm
Small Area Estimation for Rao and Yu Model
Encrypt and Decrypt Strings, R Objects and Files
Charts for Monitoring Clinical Trial Safety
Create Interactive Graphics Related to Clinical Trial Safety
Interactive Graphics for Monitoring Clinical Trial Safety
Sensitivity Analysis for Functional Input
Applied Statistics for Economics and Management with R
Variable Selection using Simulated Annealing
Sensitivity Analysis for Binary Missing Data
Provides Access to Salem Witchcraft Data
An Implementation of 'Salesforce' APIs Using Tidy Principles
Search Algorithms and Loss Functions for Bayesian Clustering
A Collection of Techniques Correcting for Sample Selection Bias
Sampling Surface Simulation for Areal Sampling Methods
Sampford sampling (w/o replacement and unequal probabilities)
Draw Stratified Samples from the VADIR Database
Sample Design, Drawing & Data Analysis Using Data Frames
Sample size calculation for various t-Tests and Wilcoxon-Test
Sample Size Calculation for Various t-Tests and Wilcoxon-Test
Sample size calculations for complex surveys
Sample Size Calculations for Complex Surveys
Power and Sample Size Calculation for the
Cochran-Mantel-Haenszel Test
Sample Size Calculations for Case-Control Studies
Sample Size and Power Calculations for Case-Control Studies
Sampling Data Within Different Study Designs for Cluster
Randomized Trials
Sample Size for Validation of Risk Models with Binary Outcomes
SAM: Significance Analysis of Microarrays
Merge-Split Samplers for Conjugate Bayesian Nonparametric Models
Statistical Models for the Unsupervised Segmentation of
Time-Series ('SaMUraiS')
Statistical Analysis of Network Data with R
Statistical Analysis of Network Data with R, 2nd Edition
Probabilistic Numerical Modelling of Sediment Properties
Spatial Interpolation Based on Spatial Stratified Heterogeneity
C/C++ source code to trigger Address and Undefined Behaviour
Sanitizers
Keeps Track of all Performed Sanity Checks
Illustrate the Flow of Information or Material
Create Dependency Wheels and Sankey Diagrams
Stratified Analysis with Nonparametric covariable adjustment
Stratified Analysis with Nonparametric Covariable Adjustment
Synthetic Data Generation for Imbalanced Learning in 'R'
Color Palettes Based on the Works of Sanzo Wada
Insightful Spectral Analysis for Physical Applications
Spectral Analysis for Physical Applications
Group Ordinal Method for Multiple Criteria Decision-Making
Significance Analysis of Prognostic Signatures
Import Air Quality Monitoring Data in a Fast and Easy Way
An R-GUI for Spatial Analysis of Surface Runoff using the
NRCS-CN Method
Simulation and Prediction with Seasonal ARIMA Models
Snow Profile Analysis for Snowpack and Avalanche Research
Snow Profile Alignment, Aggregation, and Clustering
'python' Modules from Snowpack and Avalanche Research
Fit and Compare Species-Area Relationship Models Using
Multimodel Inference
Syntactically Awesome Style Sheets (Sass) for R
Syntactically Awesome Style Sheets ('Sass')
Scientific Analysis of Trial Errors (SATE)
Various Functions for Handling and Manipulating Remote Sensing
Data
Handling and Manipulating Remote Sensing Data
Functions for reading and displaying satellite data for
oceanographic applications with R
Visualisation and Analysis of Ocean Data Derived from Satellites
Spanning Trees Used for Network Inference
Comparing Sequences with Non-Uniform Time Intervals
Small-Sample Adjustments for Wald tests Using Sandwich
Estimators
Small-Sample Adjustments for Wald Tests Using Sandwich
Estimators
Parameter-Free Domain-Agnostic Season Length Detection in Time
Series
Sequential BART for Imputation of Missing Covariates
Semiparametric Bayesian Gaussian copula estimation and
imputation
Semiparametric Bayesian Gaussian Copula Estimation and
Imputation
sbioPN: Simulation of deterministic and stochastic spatial
biochemical reaction networks using Petri Nets
Sparse Bayesian Learning for QTL Mapping and Genome-Wide
Association Studies
Semidefinite Programming for Fitting Block Models of Equal Block
Sizes
Text Prediction via Stupid Back-Off N-Gram Models
Machine Learning with AdaBoost on Decision Stumps
Data Analysis Functions for 'SBpipe' Package
Stable Balancing Weights for Causal Inference and Estimation
with Incomplete Outcome Data
Stable Balancing Weights for Causal Inference and Missing Data
An Automated Cell Type Annotation Tool for Single-Cell
RNA-Sequencing Data
Single Cell Genomics for Enhancing Cell Composition Inference
from Bulk Genomics Data
Single-Cell Clustering using Autoencoder and Network Fusion
Single Cell Cluster-Based Annotation Toolkit for Cellular
Heterogeneity
Single-Cell Decomposition using Hierarchical Autoencoder
Differential Analysis of Intercellular Communication from
scRNA-Seq Data
Interpretation of Heterogeneous Single-Cell Gene Expression Data
Single-Cell Imputation using Subspace Regression
Visualize the Basic Characteristics of Single-Cell Immune
Repertoire
Inferring Functional Gene Co-Expression Networks from Single
Cell Data
Fitting Discrete Distribution Models to Count Data
Aligning Ontology Annotation Across Single Cell Datasets with
'scOntoMatch'
Calculation of the Conventional and Self-Calibrating Palmer
Drought Severity Index
Metrics for Benchmarking scRNA-Seq Batch Correction
A Pipeline to Process Single Cell RNAseq Data
Single Cell RNA Sequencing Data Analysis Tools
Single-Cell Trajectory Inference using Ensemble Pseudotimes
In-Silico Knockout Experiments from Single-Cell Gene Regulatory
Networks
Construct and Compare scGRN from Single-Cell Transcriptomic Data
Utility Functions for Single-Cell RNA Sequencing Data
Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models
Scaffolding Interfaces to Packages in Other Programming
Languages
Compute scagnostics - scatterplot diagnostics
Scale Alignment for Between-Items Multidimensional Rasch Family
Models
Approximately Unbiased P-values via Multiscale Bootstrap
Approximately Unbiased P-Values via Multiscale Bootstrap
Single-Case Data Analyses for Single and Multiple AB Designs
Single-Case Data Analyses for Single and Multiple Baseline
Designs
Space-Time Anomaly Detection using Scan Statistics
Graph Neural Network-Based Framework for Single Cell Active
Pathways and Gene Modules Activity
Graph Neural Network-Based Framework for Single Cell Active
Pathways and Gene Modules Analysis
User-Defined Classification of Raster Surfaces
Shape-Constrained Additive Regression: a Maximum Likelihood
Approach
Create Scatter Plots with Marginal Density or Box Plots
Generate Instance Space Based on Scagnostics
'Htmlwidget' for a Scatter Plot Matrix & Multiple Scatter Plot
The Self-Consistent, Competing Risks (SC-CR) Algorithms
Estimating Hierarchical Linear Models for Single-Case Designs
Applying Partitioning Around Medoids to Single Cell Data with
High Number of Cells
Construct Reduced Trees with Predefined Nodal Structures
Tools for analyzing factorial experiments
Tools for Analyzing Factorial Experiments
Analyse citation data from Google Scholar
Analyse Citation Data from Google Scholar
Functions and datasets for math used in school
Functions and Datasets for Math Used in School
The Entire Transcript from the Office in Tidy Format
Schloss Lab Tools for Reproducible Microbiome Research
A package on the Schwartz two-factor commodity model
Upgraded 'Rmarkdown' Themes for Scientific Writing
Colour Palettes Based on the Scientific Colour-Maps
Data Sets from Design and Analysis of Experiments and
Observational Studies using R
Visualize Reproducibility and Replicability in a Comparison of
Scientific Studies
Visualize 'Reproducibility' and 'Replicability' in a Comparison
of Scientific Studies
Scientific Graphing Functions for Factorial Designs
Scientific Graphing Functions for Factorial Designs and XPPAUT
Summarize Data for Scientific Publication
Maximum-Likelihood Perfect Phylogeny Inference at Scale
Measure Growth Patterns and Align Sampling Spots in Photographs
Statistical Comparison of Multiple Algorithms in Multiple
Problems
Data Manipulation Using Arbitrary Row and Column Criteria
Spectral Clustering-Based Method for Identifying B Cell Clones
A Package to Score Behavioral Questionnaires
Peak Functions for Peak Detection in Univariate Time Series
Quickly Score Models in Data Science and Machine Learning
Scoring Rules for Parametric and Simulated Distribution
Forecasts
A Collection of Scoring Functions for Assessing Point Forecasts
Utilities for Scoring and Assessing Predictions
Implements the Scout method for Covariance-Regularized
Regression
Implements the Scout Method for Covariance-Regularized
Regression
Implements the Scout method for Covariance-Regularized Regression
Phase Variants Within Genes Using Allele Counts
Prediction Intervals for Synthetic Control Methods
Prediction Intervals for Synthetic Control Methods with Multiple
Treated Units and Staggered Adoption
Single Cell Poisson Probability Paradigm
Estimate Ploidy and Absolute Copy Number from Single Cell
Sequencing
Tools for Scraping Data from HTML and XML Documents
Functions for Scraping Data from HTML and XML Documents
Analysis of High-Dimensional Categorical Data such as SNP Data
Analysis of High-Dimensional Categorical Data Such as SNP Data
Determine a Script's Filename from Within the Script Itself
Transcript-based unit tests that are easy to create and maintain
Transcript-Based Unit Tests that are Easy to Create and Maintain
Simulating the Evolution of Biological Sequences
Animate 'shiny' Elements when They Scroll into View using the
'scrollrevealjs' Library
Key Derivation Functions for R Based on Scrypt
Variance Stabilizing Transformations for Single Cell UMI Data
Scuba diving calculations and decompression models
Diving Calculations and Decompression Models
A simple toolbar GUI for brushing RGL plots
Balancing Multiclass Datasets for Classification Tasks
Scale-Dependent Hyperpriors in Structured Additive
Distributional Regression
Species Distribution and Stability Future Models
Shrinkage Discriminant Analysis and Feature Selection
Shrinkage Discriminant Analysis and CAT Score Variable Selection
Social Dynamics and Complexity in the Ancient Mediterranean
Create and (Interactively) Modify Nested Hierarchies
Tools for Statistical Disclosure Control in Research Data
Centers
Statistical Disclosure Control methods for the generation of public- and scientific-use files.
Statistical Disclosure Control methods for the generation of
public- and scientific-use files.
Statistical Disclosure Control methods for the production of
public- and scientific-use files.
Statistical Disclosure Control methods for anonymization of
microdata and risk estimation
Statistical Disclosure Control Methods for Anonymization of
Microdata and Risk Estimation
Statistical Disclosure Control Methods for Anonymization of Data
and Risk Estimation
Graphical user interface for package sdcMicro
Graphical User Interface for Package 'sdcMicro'
Graphical User Interface for Package sdcMicro
Statistical Disclosure Control for Spatial Data
statistical disclosure control for tabular data
Methods for SDC (statistical disclosure control) in tabular data
Methods for statistical disclosure control in tabular data
Methods for Statistical Disclosure Control in Tabular Data
Statistical Disclosure Control Substitution Matrix Calculator
Simulation and Inference for Stochastic Differential Equations
Synthesizing List of Differentially Expressed Features
Statistical Tools for Toroidal Diffusions
Synthetic Data Generation for Linkage Methods Development
A User-Friendly Application for Species Distribution Modeling
Species Distribution Modelling Predictor Datasets from Around
the Web
Species Distribution Modelling Predictor Datasets
Create virtual species for species distribution modelling
Create Virtual Species for Species Distribution Modelling
Soft Discretization-based Bayesian Network Inference
Summarizing Distributions of Latent Structures
M-Estimator for Threshold Spatial Dynamic Panel Data Model
Measures of Risk for the Compound Poisson Risk Process with
Diffusion
Semi-Definite Quadratic Linear Programming Solver
Signal detection theory measures and alternatives
Signal detection theory and alternatives
Scenario Discovery Tools to Support Robust Decision Making
A Single Cell Transcriptomics Based Deconvolution Pipeline for
Leukemia
Calculates parameters of the seawater carbonate system
Lasso, Group Lasso, and Sparse-Group Lasso for Mixed Models
Sealing the R Objects Test and Assert Conditions
Simple evolutionary algorithm optimization: graphical user interface
Make R Objects Searchable by Matching Names Based on Case
(in)Sensitivity, Regular Expressions, ...
Tools for Custom Searches / Subsets / Slices of Named R Objects
Seasonal statistics, analysis and graphics, especially for climatology
Seasonal analysis and graphics, especially for climatology
Seasonal Analysis and Graphics, Especially for Climatology
Toolbox for Clumped Isotope Seasonality Reconstructions
Seasonality Variation Plots of Stock Prices and Cryptocurrencies
Graphical User Interface for Seasonal Adjustment
Tools for Designing Spatially Explicit Capture--Recapture
Studies
Sampling Design for Spatially Explicit Capture--Recapture
Sampling Design for Spatially Explicit Capture-Recapture
Share Sensitive Information in R Packages
Encrypt Text Using a Shifting Substitution Cipher
Spatially Explicit Capture-Recapture for Linear Habitats
Several Examined and Concealed States-Dependent Speciation and
Extinction
Handling of Data from the Clinical Data Management System
'secuTrial'
Identify and Parse Web Security Policies Files
Simulation of Sediment Archived Climate Proxy Records
Visualisation Toolbox for 'easystats' and Extra Geoms, Themes
and Color Palettes for 'ggplot2'
Model Visualisation Toolbox for 'easystats' and 'ggplot2'
Access Data from the SeeClickFix Web API
View Colors Used in R Objects in the Console
Hydro and Thermal Time Seed Germination Models in R
Regression Analysis for Seed Germination as a Function of
Temperature
Estimate Hidden Inputs using the Dynamic Elastic Net
Models for Drying and Soaking Kinetics of Seeds
Simulation of Evolutionary and Epidemiological Dynamics
Statistics for Environmental Sciences, Engineering, and
Geography
Simplified Fetching and Processing of Microarray and RNA-Seq
Data
Simulation of Ecological and Environmental Models
Time wave analysis and graphical representation
A set of tools for residential segregation research
A set of tools for measuring spatial segregation
Multiple Change-Point Detection for High-Dimensional GARCH
Processes
Modeling Non-Continuous Linear Responses of Ecological Data
SegClust : a package for Segmentation and Segmentation/Clustering.
SegClust : a package for Segmentation and
Segmentation/Clustering.
Bivariate Segmentation/Clustering Methods and Tools
Sequence Generalization Through Similarity Network
Determine Event Boundaries in Event Segmentation Experiments
Similarity-Based Segmentation of Multidimensional Signals
Segmented relationships in regression models
Segmented relationships in regression models with
breakpoints/changepoints estimation
Regression models with breakpoints/changepoints estimation
Regression Models with Breakpoints/Changepoints Estimation
Regression Models with Break-Points / Change-Points Estimation
Regression Models with Break-Points / Change-Points (with
Possibly Random Effects) Estimation
Metrics for Assessing Segmentation Accuracy for Geospatial Data
Segregation Analysis for Variant Interpretation
Predict Information Cascade by Self-Exciting Point Process
Fast Rolling Functions for Seismology using Rcpp
Fast Rolling Functions for Seismology using 'Rcpp'
An Information About Deputies and Votings in Polish Diet
An Information About Deputies and Votings in Polish Diet from
Seventh to Eighth Term of Office
Selection Models for Amino Acid and/or Codon Evolution
Post-Selection Inference for Generalized Linear Models
Estimation weight functions in meta analysis
Estimation of weight functions in meta analysis
Estimation of Weight Functions in Meta Analysis
Optimal Selection of SNPs Using a Unified Local Function
Analysis of Field and Laboratory Foraging
Correcting Biased Estimates Under Selection
Analysis of Selection Index in Plant Breeding
Expected gain from multistages selection
A tool for efficient calculation and optimization of the
expected gain from multi-stage
A tool for calculation and optimization of the expected gain
from multi-stage selection
A Tool for Calculation and Optimization of the Expected Gain
from Multi-Stage Selection
Expected gain from multi-stage selection and its optimization
Translate CSS Selectors to XPath Expressions
Select point patterns models based on minimum contrast and AIC
Select Point Pattern Models Based on Minimum Contrast, AIC and
Goodness of Fit
R Client Implementing the W3C WebDriver Specification
Select Features Reliably with Cohen's Effect Sizes
Genotype Probabilities in Intermediate Generations of Inbreeding
Through Selfing
Selective Inference for Mixed and Additive Model Estimators
Automatic Calculation of Effects for Piecewise Structural
Equation Models
Goodness-of-fit indeces for structural equations models
Goodness-of-fit indexes for structural equation models
Structural Equation Modeling Using Partial Least Squares
Path diagrams and visual analysis of various SEM packages'
output
Path Diagrams and Visual Analysis of Various SEM Packages'
Output
Useful tools for structural equation modeling.
Useful Tools for Structural Equation Modeling
Dashboard with Semantic UI Support for 'shiny'
Dashboard with Semantic UI Support for Shiny
Dashboard with Fomantic UI Support for Shiny
Extracting Semantic Motifs from Textual Data
Helper Functions for Structural Equation Modeling
Use Inverse Probability Weighting to Estimate Treatment Effect
for Semi Competing Risks Data
Domain-Specific Language for Building PLS Structural Equation
Models
Domain-Specific Language for Building and Estimating Structural
Equation Models
Building and Estimating Structural Equation Models
Kernel PCA projection, and semi-supervised variant.
Monte Carlo Confidence Intervals in Structural Equation Modeling
Bayesian Structural Equation Modeling in Multiple Omics Data
Integration
Constructing and Interacting with Databases of Presentations
Customizing Structural Equation Modelling Plots
Semiparametric Estimation of Stochastic Frontier Models
Recursive Partitioning for Structural Equation Models
Find, Download and Process Sentinel-2 Data
Enable Cross-Study Analysis of 'CDISC' 'SEND' Datasets
Tool for sending interactive plots with tool-tip content.
Thurstonian models for sensory discrimination
Thurstonian Models for Sensory Discrimination
Automatic Stacked Ensemble for Regression Tasks
Sensitivity Analysis Tools for Regression Models
Sensitivity Analysis for Comparative Methods
Access to 'Sensibo Sky' API V2 for Air Conditioners Remote
Control
Global Sensitivity Analysis of Model Outputs
Sensitivity Analysis for 2x2xk Tables in Observational Studies
A Calibrated Sensitivity Analysis for Matched Observational
Studies
Principal Stratification Sensitivity Analysis Functions
Sensitivity Analysis for Full Matching in Observational Studies
Sensitivity Analysis for Observational Studies with Multiple
Outcomes
Sensitivity Analysis in Observational Studies
Sensitivity analysis using weighted M-statistics
Sensitivity Analysis for Observational Studies Using Weighted
M-Statistics
Parametric Estimation and Sensitivity Analysis of Direct and
Indirect Effects
Computation of High-Order Sobol' Sensitivity Indices
Computation of Variance-Based Sensitivity Indices
Test and Optimise Sampling Designs Based on Plume Simulations
Simultaneous Model-Based Clustering and Imputation via a
Progressive Expectation-Maximization (PEM) algorithm.
Simultaneous Model-Based Clustering and Imputation via a
Progressive Expectation-Maximization Algorithm
Sensitivity Analysis for Stratified Observational Studies
Text Tokenization using Byte Pair Encoding and Unigram Modelling
Simple Sentiment Analysis Using Deep Learning
An Integrated Framework for Textual Sentiment Time Series
Aggregation and Prediction
Tools for Joint Sentiment and Topic Analysis of Textual Data
Sepkoski's Fossil Marine Animal Genera Compendium
Standard Evaluation Interfaces for Common 'dplyr' Tasks
Standard Evaluation Improved Interfaces for Common Data
Manipulation Tasks
Improved Standard Evaluation Interfaces for Common Data
Manipulation Tasks
Simple method to detect compositional changes in genomic
sequences
Copy Number Profiling using Sequencing and CBS
Simulation and group sequential monitoring of randomized
multi-arm two-stage Phase IIb/III treatment efficacy trials
with time-to-event endpoints
Simulation and Group Sequential Monitoring of Randomized
Two-Stage Treatment Efficacy Trials with Time-to-Event
Endpoints
Hidden Markov Models for Life Sequences and Other Multivariate,
Multichannel Categorical Time Series
Mixture Hidden Markov Models for Social Sequence Data and Other
Multivariate, Multichannel Categorical Time Series
Efficient meta analysis for the SKAT test
An R package for meta-analyzing region-based tests of rare DNA
variants
Meta-Analysis of Region-Based Tests of Rare DNA Variants
Generates a permutation matrix based upon a sequence.
Fast and Comprehensive K-Mer Counting Package
Simulation and visualization of restriction enzyme cutting
pattern from DNA sequences.
Sequential Method for Classification and Generalized Estimating
Equations Problem
Miscellaneous Tools for Sequence Analysis
Imputation of Missing Data in Sequence Analysis
Biological Sequences Retrieval and Analysis
Efficiently Read Variant Call Format (VCF) into R
Efficiently Read Sequencing Data (VCF format, METAL format) into
R
Efficiently Read Sequence Data (VCF format, BCF format and METAL
format) into R
Efficiently Read Sequence Data (VCF Format, BCF Format and METAL
Format) into R
Efficiently Read Sequence Data (VCF Format, BCF Format, METAL
Format and BGEN Format) into R
Sequential Monitoring of Clinical Trials
Group Sequential Design Class for Clinical Trials
Analysis and visualization of tumor sequencing data.
Analysis and visualization of tumor genome sequencing data.
Copy number estimation from tumor genome sequencing data.
Copy Number Estimation from Tumor Genome Sequencing Data
Tools to Transform and Query Data with 'Apache' 'Drill'
Tools to Transform and Query Data with Apache Drill
Infrastructure for Ordering Objects Using Seriation
Lower Confidence Bounds for Binomial Series System
Estimating Infection Rates from Serological Data
Smooth Effects on Response Penalty for 'CLM'
Smooth Effects on Response Penalty for CLM
Bayesian Modelling of Raman Spectroscopy
Analyze Data Generated from Syntech Servosphere Trials
A Simple HTTP Server to Serve Static Files or Dynamic Documents
Spatially explicit structural equation modeling
Spatially Explicit Structural Equation Modeling
Functions for interacting with, saving and restoring R sessions.
Tools for saving, restoring and teleporting R sessions.
Set (normal) random number generator and seed
Set (Normal) Random Number Generator and Seed
Sets, Generalized Sets, and Customizable Sets.
Sets, Generalized Sets, Customizable Sets and Intervals
Sets, Generalized Sets, and Customizable Sets
Set the value of options("width") on terminal emulators
Automatically Set the Width Option on Terminal Emulators
Customise 'Shiny' Disconnected Screens and Error Messages
Advanced Methods for Stochastic Frontier Analysis
Read/Write Simple Feature Objects ('sf') with 'Apache' 'Arrow'
Constrained Triangulation for Simple Features
Converts Between R Objects and Simple Feature Objects
Straightforward Filtering Index for AP-MS Data Analysis (SFINX)
San Francisco International Airport Monthly Air Passengers
Utilities from Seminar fuer Statistik ETH Zurich
Utilities from 'Seminar fuer Statistik' ETH Zurich
Utilities from "Seminar fuer Statistik" ETH Zurich
Functions for Systems Factorial Technology Analysis of Data
Classes and Methods for Simple Feature Objects that Have a Time
Column
Modern Classes for Tracking and Movement Data
Sparse Group Partial Least Square Methods
Enrichment Analysis of CRISPR/Cas9 Knockout Screen Data
Extract Information from Google's "Popular Times"
Stochastic Gradient Descent for Scalable Estimation
An Object-oriented Framework for Geostatistical Modeling in S+
An Object-Oriented Framework for Geostatistical Modeling in S+
Fitting Semi-Parametric Generalized log-Gamma Regression Models
An R package for power and boundary calculations in
pre-licensure vaccine trials using a sequential generalized
likelihood ratio test
Sequential Generalized Likelihood Ratio Decision Boundaries
Proposed by Shih, Lai, Heyse and Chen (2010,
<doi:10.1002/Sim.4036>)
Stochastic Gradient Markov Chain Monte Carlo
Solves a Generic Stochastic Growth Model with a Representative
Agent
Simple Geographical Operations (with OSGB36)
Calculate Second-Generation p-Values and Associated Measures
Seasonal Generalized Space Time Autoregressive (S-GSTAR) Model
R Package for Geometric Shade Calculations
Selenium Plugin to Manage Multi Level Shadow Elements on Web
Page
Random Partition Distribution Indexed by Pairwise Information
Functions for plotting graphical shapes, colors
Functions for Plotting Graphical Shapes, Colors
M-Estimation of Shape for Data with Missing Values
Collection and Analysis of Otolith Shape Data
Prediction Explanation with Dependence-Aware Shapley Values
Stability-enHanced Approaches using Resampling Procedures
Penalized Data Sharpening for Local Polynomial Regression
Estimating Regulatory Scores and Identifying HiDRA Data
Estimating Regulatory Scores and Identifying ATAC-STARR Data
A collection of functions to support soil survey
Models and Data Sets for the Study of Species-Area Relationships
Estimate the Shattering Coefficient for a Particular Dataset
Provide SLT Tools for 'rpart' and 'tree' to Study Decision Trees
Natural disaster losses for the USA from the SHELDUS database
Bivalve Growth and Trace Element Accumulation Model
Graphical Displays to Aid Structured Problem Solving and
Diagnosis
Fast Enrichment Analysis via Circular Permutations
Lorem-Ipsum Helper Function for 'shiny' Prototyping
Optional Login and Registration Module System for ShinyApps
Basic Routing for Shiny Web Applications
Delegate Jobs for Shiny Web Applications
Combined Slider and Numeric Input for 'Shiny'
A Wrapper of the 'React' Library 'Chakra UI' for 'Shiny'
Modular Cohort-Building Framework for Analytical Dashboards
Create Interactive Network Visualizations in R and 'shiny'
Customize Your Web Apps with Fancy Effects
Displays User Feedback Next to Shiny Inputs
A server-side file system viewer for shiny
A Server-Side File System Viewer For Shiny
A Server-Side File System Viewer for Shiny
Custom Components for Shiny Applications
Item Response Theory Analysis with a 'shiny' Application
A Shiny User Interface of Time Warping for Improved Gradient
Matching
An Interactive Application for ODE Parameter Inference Using
Gradient Matching
Bootstrap Landing Home Pages for Shiny Applications
Compare H20 or Spark Supervised Regression Models Using Shiny
App
Compare Supervised Machine Learning Models Using Shiny App
Compare and Merge Two Files with a 'Shiny' App
Mobile Ready 'shiny' Apps with Standalone Capabilities
Molecular Biology Visualization Tools for 'Shiny' Apps
Interactive Plotting for Mathematical Models of Infectious
Disease Spread
Shiny Searchbar - An Input Widget for Highlighting Text and More
Creates an Executable Shortcut for Shiny Applications
Secure in-Browser Storage for 'Shiny' Inputs and Variables
Explore Temporal Signal of Molecular Phylogenies
'WebVR' Data Visualizations with 'RStudio Shiny' and 'Mozilla
A-Frame'
Easily Create Pretty Popup Messages (Modals) in 'Shiny'
Bootstrap 2 Web Components for Use with Shiny
Bootstrap 2 web components for use with Shiny
Graphical User Interface (Shiny App) for Package 'brms'
Graphical User Interface ('Shiny' App) for Package 'brms'
Graphical User Interface ('shiny' App) for 'brms'
Find Out Information About a User's Web Browser in 'Shiny'
Busy Indicators and Notifications for 'Shiny' Applications
Add CSS Loading Animations to 'shiny' Outputs
Add Loading Animations to a 'shiny' Output While It's
Recalculating
Add some 'AdminLTE2' Components to 'Shinydashboard'
Add some 'AdminLTE2' Components to 'shinydashboard'
Add More 'AdminLTE2' Components to 'shinydashboard'
Show a Nice Message When a 'Shiny' App Disconnects or Errors
Add a Download Button to a 'shiny' Plot or 'plotly'
Use Interdependent Filters on Table Columns in Shiny Apps
Display 'HTML' Elements on Full Screen in 'Shiny' Apps
Easily Add Markdown Help Files to 'shiny' Inputs and Outputs
Easily Add Markdown Help Files to 'shiny' App Elements
Progress Bars for Downloads in 'shiny' Apps
'jQuery UI' Interactions and Effects for Shiny
Perform Common JavaScript Operations in Shiny Apps using Plain R
Code
Easily Improve the User Experience of Your Shiny Apps in Seconds
Record Everything that Happens in a 'Shiny' Application
Authentication Management for 'Shiny' Applications
Implement Material Design in Shiny Applications
Export Domain Logic from Shiny using Meta-Programming
Data Insights Through Inbuilt R Shiny App
Shiny User Interface for Multiple Source Capture Recapture
Models
Gadget to Use the Data Preprocessing 'recipes' Package
Interactively
Capture Screenshots of Entire Pages or Parts of Pages in 'Shiny'
Interactive Visual and Numerical Diagnostics and Posterior
Analysis for for Bayesian Models
Interactive Visual and Numerical Diagnostics and Posterior
Analysis for Bayesian Models
Update Browser Window Title in 'shiny' Session
Miscellaneous Functions from Alexey Shipunov
Slope Heuristic for Block-Diagonal Covariance Selection in High
Dimensional Gaussian Graphical Models
Get 'Shopify' Ads Data via the 'Windsor.ai' API
Useful Shortcuts to Interact with 'RStudio' Scripts
Enable (any) R Graphics Device to Show Text Using System Fonts
Convert a SpatialLinesDataFrame object to a "igraph-class"
object
Convert a SpatialLinesDataFrame Object to an 'igraph'-Class
Object
Global, Parameterwise, and Joint Shrinkage of Regression
Coefficients
Global, Parameterwise, and Joint Post-Estimation Shrinkage
Global, Parameterwise and Joint Post-Estimation Shrinkage
Global, Parameterwise and Joint Shrinkage Factor Estimation
Efficient Bayesian Inference for Dynamic Survival Models with
Shrinkage
Efficient Bayesian Inference for Time-Varying Parameter Models
with Shrinkage
Accessing the Flipside Crypto ShroomDK REST API
The Shuffle Estimator for Explainable Variance
The shuffle estimator for explainable variance
Confidence Intervals Compared via Shuffling
Shenzhen Institutes of Advanced Technology Clustering Suite
Analysis of Single-Cell Viral Growth Curves
Quick and Easy Access Tax and Accounting Data of Brazil
Fetch Data from Plataforma +Brasil (SICONV)
SIDIER: Substitution and Indel Distances to Infer Evolutionary
Relationships
Substitution and Indel Distances to Infer Evolutionary
Relationships
Sieve Analysis Methods for Proportional Hazards Models
Laboratory Sieve Test Reporting Functions
Estimate the Parameters of a Discrete Crisis-Bargaining Game
Quality Control Metrics for Gene Signatures
Interface to 'Sigma.js' Graph Visualization Library
Capture Genomic Variation Signatures using Non-Negative Matrix
Factorization
Extract, Analyze and Visualize Signatures for Genomic Variations
Extract, Analyze and Visualize Mutational Signatures for Genomic
Variations
Real-Time Signal Extraction (Direct Filter Approach)
Extract the Signed Backbones of Weighted Networks
Statistical Significance Marks on Boxplots
Perform Exact Sign Test and Asymptotic Sign Test in Large
Samples
Format Significance Summaries for Reports
Succinct and Correct Statistical Summaries for Reports
Superior Identification Index and Its Extensions
Common Forms for Complex Hierarchical and Relational Data
Structures
Genotype Simulations for Rare or Common Variants Using
Haplotypes from 1000 Genomes
Simulate Outcomes Using Spatially Dependent Design Matrices
Evapotranspiration Simulation and Soil Water Balance under Field
Generate Simulated Data for IRT-Enabled Exams
Fast Simulation of Large Case-Control GWAS Summary Statistics
Stochastic Simulation for Information Retrieval Evaluation:
Effectiveness Scores
Analysis via Simulation of Interrupted Time Series (ITS) Data
Simulate Somatic Mutations in Cancer Genomes from Mutational
Processes
Simulation of event histories based on nonlinear hazard rate
functions and potentially nonlinear covariate effects.
Simulation of Event Histories for Multi-state Models
Simulation of Event Histories for Multi-State Models
Metrics (with Uncertainty) for Simulation Studies that Evaluate
Statistical Methods
Simulation Model of Expression Data for Pathway Analysis
A Method for Simulating Data from Perturbed Biological Pathways
Tools for simulating and plotting quantities of interest
estimated from Cox Proportional Hazards models.
Tools for simulating and plotting quantities of interest
estimated from Cox Proportional Hazards models
Tools for Simulating and Plotting Quantities of Interest
Estimated From Cox Proportional Hazards Models
Tools for Simulating and Plotting Quantities of Interest
Estimated from Cox Proportional Hazards Models
Simulate and Plot Estimates from Cox Proportional Hazards Models
Simulation of Synthetic Populations for Survey Data Considering
Auxiliary Information
Simulation of Complex Synthetic Data Information
Simulation of synthetic populations for surveys based on sample
data
Data Transformation or Simulation with Empirical Covariance
Matrix
An easy to learn framework to conduct simulation studies which
disengages the researcher from administrative source code.
Conduct Simulation Studies with a Minimal Amount of Source Code.
Conduct Simulation Studies with a Minimal Amount of Source Code
A Collection of functions for similarity calculation of binary data
A Collection of functions for similarity analysis of vegetation
data
Simultaneous Confidence Intervals and Adjusted p--values for
Diversity Indices
Simultaneous inference for diversity indices.
Simultaneous Inference for Diversity Indices
Simulating Longitudinal Data with Causal Inference Applications
Simulate Cognitive Diagnostic Model (CDM) Data
Simulate Cognitive Diagnostic Model ('CDM') Data
A package to import Structure files and deduce similarity coefficients from them
A package to import Structure files and deduce similarity
coefficients from them
Sequential (or Safe) Implementation of Monte Carlo tests with
uniformly bounded resampling risk.
Safe implementation of Monte Carlo tests.
Safe Implementation of Monte Carlo Tests
Assessment of Data Trial Distributions According to the
Carlisle-Stouffer Method
SIMulation of ECOLogical (and other) dynamic systems
Simulation of ecological (and other) dynamic systems
Simulation of Ecological (and Other) Dynamic Systems
Data Simulation for Life Science and Breeding
Constrained Single Index Model Estimation
SIMEX- and MCSIMEX-Algorithm for measurement error models
SIMEX- And MCSIMEX-Algorithm for Measurement Error Models
Simulate and Model Family Pedigrees with Structured Founders
Import Financial Data from the 'SimFin' Project
Simulate Models Based on the Generalized Linear Model
Simulation-Based Landscape Construction for Dynamical Systems
Helper Methods for 'simmer' Trajectories
Statistical Inference for Systems of Ordinary Differential
Equations using Separable Integral-Matching
Flexible Framework for Developing Spatial Interaction Models
Statistical Inference for MOdular NEtworks (SIMoNe)
Simple Multilayer Perceptron Neural Network
Simulation of Pleiotropic, Linked and Epistatic Phenotypes
Set Up R Source Code Files for Use on Multiple Machines
Access Color Names Using a Standardized Nomenclature
Simple Graph Data Types and Basic Algorithms
Simple Engine for Generating Reports using R
Easily Manage Options Files for your Packages and Scripts
Simple Visualisation with 'ggplot2' and 'leaflet' Wrappers
Make 'ggplot2' and 'leaflet' Visualisation Easier
Make 'ggplot2' Visualisation Easier and Quicker
Simple 'ggplot2' Visualisation with Less Brainpower and Typing
Simple 'ggplot2' Visualisation with Less Brainpower
Simple 'ggplot2' and 'leaflet' Visualisation with Less
Brainpower
Wrappers to Simplify Beautiful 'ggplot2' and 'leaflet'
Visualisation
Simplex Design for Stochastic Simulations and Agent Based Models
Regression Analysis of Proportional Data Using Simplex
Distribution
Provides Tools for Working with General Simplicial Complexes
Power Analysis for Generalised Linear Mixed Models by Simulation
Simulation of Recurrent Event Data for Non-Constant Baseline
Hazard
Linear Model Data Simulation and Design of Computer Experiments
Simulation of Multivariate Linear Model Data
Tools for Simulation Studies in Parallel with R
Tools for Simulation Studies in Parallel
Datetimes as Integers for Discrete-Event Simulations
Simultaneous Clustering and Factorial Decomposition of Three-Way
Datasets
Simulation with Kernel Density Estimation
Fast Simultaneous Confidence Bands Based on the Efficient
Influence Function and Multiplier Bootstrap
Simularia Tools for the Analysis of Air Pollution Data
A Constrained L1 Minimization Approach for Estimating Multiple
Sparse Gaussian or Nonparanormal Graphical Models
An Enhanced Chart for Simple and Truthful Representation of
Single Observations over Multiple Classes
Conditional Least Squared (CLS) Method for the Model SINAR(1,1)
A simple web app framework for R, based on sinatra.
Sparse Identification of Nonlinear Dynamics
Create 'roxygen2' Skeleton with Information from Function Script
Package Development Documentation and Namespace Management
Finding Needles (=differentially Expressed Genes) in Haystacks
(=single Cell Data)
statistical tests for single case studies in neuropsychology
Sum of Independent Non-Identical Binomial Random Variables
An R Package for Single-Index Quantile Regression
Functions for calculating daily solar radiation and
evapotranspiration
Functions for Calculating Daily Solar Radiation and
Evapotranspiration
Hybrid FA-CFA for Controlling Acquiescence in Restricted
Factorial Solutions
Supplementary Item Response Theory Models
Stable and Interpretable RUle Set (SIRUS)
Some Invalid Some Valid Instrumental Variables Estimator
Simulation of in Silico Multi-Omic Networks
A Collection of Utility Function from the Inserm/Inria SISTM
Team
SISUS: Stable Isotope Sourcing using Sampling
Super Imposition by Translation and Rotation Growth Curve
Analysis
Automatically Generate _site.yml File for 'R Markdown'
Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header
Files
Format a number to a string with SI prefix
Satellite Image Time Series Analysis for Earth Observation Data
Cubes
Sensitivity Indices with Dependent Inputs
sjPlot - data visualization for statistics in social science
Data Visualization for Statistics in Social Science
Scalable Joint Species Distribution Modeling
Data Transformation and Labelled Data Utility Functions
Data and Variable Transformation Functions
Collection of Convenient Functions for Common Statistical
Computations
Convert 'sjPlot' HTML-Tables to R 'data.frame'
Utilities for SNP-Based Kinship Analysis
Sparse (Multicategory) Kernel Discriminant Analysis
Heteroskedasticity Diagnostics for Linear Regression Models
Handling Heteroskedasticity in the Linear Regression Model
Densities and Sampling for the Skellam Distribution
Sketching of Data via Random Subspace Embeddings
Estimation for Scale-Shape Mixtures of Skew-Normal Distributions
Scale Mixture of Skew-Normal Linear Mixed Models
Estimate Sample Sizes for Group Comparisons with Skewed
Distributions
Tools for analyze Skew-Elliptical distributions and related
models
Information Tools for analyze Skew-Elliptical distributions and
related models
A Light-Weight Wrapper for the 'SkillsEngine' API
Measuring Agreement Using Sklar's Omega Coefficient
Design of Experiments Suite: Generate and Evaluate Optimal
Designs
Skyscape Archaeology Data Reduction, Visualization and Analysis
Data Analysis and Visualization for Skyscape Archaeology
Send messages, images, R objects and files to Slack.com
channels/users
Send Messages, Images, R Objects and Files to 'Slack'
Channels/Users
S-LASSO Estimator for the Function-on-Function Linear Regression
Estimation and Use of the Quantile-Based Skew Logistic
Distribution
Wrapper Functions Around 'Sleeper' (Fantasy Sports) API
Semiparametric Likelihood Estimation with Errors in Variables
A Simulation Framework for Spatiotemporal Population Genetics
Tools for fitting sparse latent factor model
Tools for Fitting Sparse Latent Factor Model
Fitting a Bayesian Sparse Latent Factor Model in Gene Expression
Analysis
Data Access Tools for the Soil and Landscape Grid of Australia
Bayesian Model Selection with Suspected Latent Grouping Factors
Create Interactive Carousels with the JavaScript 'Slick' Library
Create Interactive Carousels with the 'JavaScript' 'Slick'
Library
Compare Raster Images Side by Side with a Slider
Singular Linear Models for Longitudinal Data
Sparse Linear Method to Predict Ratings and Top-N
Recommendations
Change-in-Slope OP Algorithm with a Finite Number of States
Stochastic Linear Ornstein-Uhlenbeck Comparative Hypotheses
A Slow Version of the Rapid Automatic Keyword Extraction (RAKE)
Algorithm
Discrete Prolate Spheroidal (Slepian) Sequence Regression
Smoothers
Time Series Decomposition using Loess and Harmonic Regression
kernel smoothing methods: Bowman & Azzalini (1997)
Smoothing methods for nonparametric regression and density estimation
Smoothing methods for nonparametric regression and density
estimation
Smoothing Methods for Nonparametric Regression and Density
Estimation
Sparse Multi-category Angle-Based Large-Margin Classifiers
Statistical Methods for the Analysis of Case-Control Point Data
Statistical Modeling of Animal Movements
Acquisition and Processing of NASA Soil Moisture Active-Passive
(SMAP) Data
Sparse Multivariate Analysis via Rank Transformation
Sequential Multiple Assignment Randomized Trial Design
Spatial Management and Assessment of Demersal Resources for
Trawl Fisheries
Fast Multivariate Analyses of Big Genomic Data
(Standardised) Major Axis Estimation and Testing Routines
Utility functions for sequential Monte Carlo
Multiple Imputation of Covariates by Substantive Model
Compatible Fully Conditional Specification
A simple Monte Carlo optimizer using adaptive coordinate
sampling
t-test with Graph of Standardized Mean Difference, and More
Data to accompany Smithson & Merkle, 2014
Data to accompany Smithson & Merkle, 2013
Data to Accompany Smithson & Merkle, 2013
Hidden Markov Random Field for Spatial Transcriptomic Data
SMfSB 2e: Stochastic Modelling for Systems Biology, second
edition
Stochastic Modelling for Systems Biology
Statistical Methods for Interval Censored Data
Statistical Methods for Interval-Censored Data
Statistical Modelling for Infectious Disease Management
Spatial Misalignment: Interpolation, Linkage, and Estimation
Smooth Multivariate Interpolation for Gridded and Scattered Data
Provides two taxonomic coefficients from E. S. Smirnov
"Taxonomic analysis" (1969) book
Generation and Tracking of Super-Resolution Filamentous Datasets
Simulation, Estimation and Reliability of Semi-Markov Models
Structural Modeling by using Overlapped Group Penalty
Small Molecule Octet/BLI Kinetics Experiment
Single and Multi-Objective Optimization Test Functions
Smoothing of Two-Dimensional Demographic Data, Optionally Taking
into Account Period and Cohort Effects
Smooth Hazard Ratio Curves taking a Reference Value
Smooth Hazard Ratio Curves Taking a Reference Value
Smooth Time-Dependent ROC Curve Estimation
Survival Regression with Smoothed Error Distribution
Smoothed LASSO Regression via Nesterov Smoothing
A Framework to Smooth L1 Penalized Regression Operators using
Nesterov Smoothing
Functions Relating to the Smoothing of Numerical Data
Variable Selection Using a Smooth Information Criterion
Smoothed M-estimators for 1-dimensional location
Smoothed M-Estimators for 1-Dimensional Location
Smooth Estimation of GPD Shape Parameter
Nonparametric Estimation of the Trend and Its Derivatives in TS
A Collection of Oversampling Techniques for Class Imbalance
Problem Based on SMOTE
Some Movies to Illustrate Concepts in Statistics
Datasets for Agresti and Finlay's "Statistical Methods for the
Social Sciences"
Sparse Multi-Type Regularized Feature Modeling
Various Multivariate Graphics with Variable Choice in Shiny Apps
The skew-normal and skew-t distributions
The Skew-Normal and Skew-t Distributions
The Skew-Normal and Related Distributions, such as the Skew-t
The Skew-Normal and Related Distributions Such as the Skew-t
The Skew-Normal and Related Distributions Such as the Skew-t and
the SUN
Small N Sequential Multiple Assignment Randomized Trial Methods
'RStudio' Addin for Network Analysis and Visualization
Get Snapchat Ads Data via the 'Windsor.ai' API
Compress and Decompress 'Snappy' Encoded Data
Gadget N-body cosmological simulation code snapshot I/O
utilities
EM Algorithm for Multivariate Skew-Normal Distribution with
Overparametrization
Snipping Methods for Robust Estimation and Clustering
Snipping methods for robust estimation and clustering
Sparse Neural Networks for Genomic Selection in Animal Breeding
Social Network-Analysis On Relational Tables
Calculate and Visualize 'SNOTEL' Snow Data and Seasonality
Fault Tolerant Simple Network of Workstations
Network Analysis with Non-Parametric Methods that Emerge from
Snowball and Bootstrap Sampling
Easier cluster computing (based on snow).
Easier Cluster Computing (Based on 'snow')
Random Forest for SNPs to Prevent X-chromosome SNP Importance
Bias
Preparing Genotypic Datasets in Order to Run Genomic Analysis
Flexible writing of snpStats objects to flat files
A Set-Based Association Test using GWAS Summary Statistics
Nonparametric Sobol Estimator with Bootstrap Bandwidth
Specific correspondence analysis for the social sciences
Specific Correspondence Analysis for the Social Sciences
Rank and Social Hierarchy for Gregarious Animals
Social Mixing Matrices for Infectious Disease Modelling
Social Ranking Solutions for Power Relations on Coalitions
Identifying Patient Social Risk from Administrative Health Care
Data
Operationalizing Social Determinants of Health Data for
Researchers
Utility Functions and Data Sets for Data Visualization
SODA: Main and Interaction Effects Selection for Discriminant
Analysis and Logistic Regression
SODA: Main and Interaction Effects Selection for Logistic
Regression, Quadratic Discriminant and General Index Models
matrix completion via iterative soft-thresholded svd
Matrix Completion via Iterative Soft-Thresholded SVD
Training Multi-Layer Neural Network for Softmax Regression and
Classification
Soil spectral data exploration and regression functions
Soil spectral file conversion, data exploration and regression
functions
Soil Spectroscopy Tools and Reference Models
Assessment Models for Agriculture Soil Conditions and Crop
Suitability
Tools to Analyze Soil Carbon Database Created by Powell Center
Working Group
Modelling of Soil Water Retention and Hydraulic Conductivity
Data
A package to consistently represent soil properties along a soil
profile
Functions for soil texture plot, classification and
transformation
Functions for Soil Texture Plot, Classification and
Transformation
soilwater: Implements parametric formulas for soil water
retention or conductivity curve
Implementation of Parametric Formulas for Soil Water Retention
or Conductivity Curve
soilwatercurve: Implements paramatric formulas for soil water
retention or conductivity curve
Solar Position Algorithm for Solar Radiation Applications
Utilities Dealing with Solar Time Such as Sun Position and Time
of Sunrise
Calculating Solar Radiation and Related Variables Based on
Location, Time and Topographical Conditions
Topological k-NN Classifier Based on Self-Organising Maps
General-purpose optimisation with the Self-Organising Migrating
Algorithm
General-Purpose Optimisation With the Self-Organising Migrating
Algorithm
General-Purpose Optimisation with the Self-Organising Migrating
Algorithm
Controlling the Generalized Familywise Error Rate
some Brownian motions simulation functions
Spatial Analysis with Self-Organizing Maps
Estimating Abundance of Clones from DNA fragmentation data
Estimating Abundance of Clones from DNA Fragmentation Data
Bioacoustic Analysis and Publication Tools
Data Sonification - Turning Data into Sound
Single Objective Optimization Benchmark Functions
Load Russian Economic Indicators from the Archive of Economic
and Social Data
Sequential Optimal Designs for Two-Colour cDNA Microarray
Experiments
Soil Organic Carbon and CN Ratio Driven Nitrogen Modelling
Framework
A Bayesian Semiparametric Approach to Correlated ROC Surfaces
Drag-and-Drop in 'shiny' Apps with 'SortableJS'
Search contributed R packages, sort by package
Search Contributed R Packages, Sort by Package
A client for the OGC Sensor Observation Service
An R client for the OGC Sensor Observation Service
Client for OGC Sensor Observation Services
United States Presidential State of the Union Addresses
Sound Classification Using Convolutional Neural Networks
Semi-Automatic Analysis of Sound Correspondences
Fits a Non-Parametric Bayesian Source Attribution Model
Tools for the Reading and Tokenization of R Code
Tools for Reading, Tokenizing and Parsing R Code
Design and Simulation of Seamless Phase II-III Clinical Trials
Design and Simulation of seamless Phase II-III Clinical Trials
Spatial Analysis of Field Trials Experiments using Geostatistics
and Spatial Autoregressive Model
spBayes fits Gaussian models with potentially complex hierarchical error structures
Univariate and Multivariate Spatial Modeling
Univariate and Multivariate Spatial-temporal Modeling
Univariate and Multivariate Spatial-Temporal Modeling
Spatial Copula Modelling to Bayesian Survival Analysis
Bayesian Modeling and Analysis of Spatially Correlated Survival
Data
Analysis of Spatial Gradients in Radiocarbon Dates
Feature Selection and Ranking by Simultaneous Perturbation
Stochastic Approximation
Feature Selection and Ranking via Simultaneous Perturbation
Stochastic Approximation
Interacting R with Google maps: Spatial visualization tool
Spatial Regression Models using Nearest Neighbor Gaussian
Processes
Spatial Regression Models for Large Datasets using Nearest
Neighbor Gaussian Processes
Single Species, Multispecies, and Integrated Spatial Occupancy
Models
Single-Species, Multi-Species, and Integrated Spatial Occupancy
Models
Spatially Varying and Spatio-Temporal Dynamic Linear Models
Nonparametric Hypothesis Tests of Isotropy and Symmetry
Functions for Spatial Thinning of Species Occurrence Records for
Use in Ecological Models
Spatio-Temporal Bayesian Modelling Using R
Implements The Sequential Predictions Algorithm
Mixed models, particularly spatial GLMMs
Mixed Models, Particularly Spatial GLMMs
Mixed-Effect Models, Particularly Spatial Models
Mixed-Effect Models, with or without Spatial Random Effects
Latent Space Models for Multidimensional Networks
Space-Filling Random and Quasi-Random Sequences
Sparse conditional graph estimation with joint additive models.
Standard and User-Defined RGB Color Spaces, with Conversion
Between RGB and CIE XYZ
CIE XYZ and some of Its Derived Color Spaces
classes and methods for spatio-temporal data
Classes and Methods for Spatio-Temporal Data
Easily Obtain Spatial Data and Make Better Maps
Spatial and Phylogenetic Analysis of Community Diversity
Spatially weighted context data for multilevel modelling
Spatially Weighted Context Data for Multilevel Modelling
Artificial Spatial and Spatiotemporal Densities on Bounded
Windows
Artificial Spatial and Spatio-Temporal Densities on Bounded
Windows
64-Bit Extension of the SPArse Matrix R Package 'spam'
Translate Quantities from Strings Spelled in Spanish to Integer
Translate Quantities from Strings to Integer and Back. Misc
Functions on Spanish Data
Perform sparse hierarchical clustering and sparse k-means
clustering
Perform Sparse Hierarchical Clustering and Sparse K-Means
Clustering
Read in 'SAS' Data ('.sas7bdat' Files) into 'Apache Spark'
Sparklines and graphical tables for tex and html
Sparklines and Graphical Tables for TeX and HTML
Google 'BigQuery' Support for 'sparklyr'
Interface for 'TensorFlow' 'TFRecord' Files with 'Apache Spark'
Interface for 'XGBoost' on 'Apache Spark'
The sparr package: SPAtial Relative Risk
Spatial and Spatiotemporal Relative Risk
Power Analysis to Detect Spatial Relative Clusters
Power Analysis to Detect Spatial Relative Risk Clusters
Sparse biclustering of transposable data.
Sparse Biclustering of Transposable Data
Computation of Sparse Eigenvectors of a Matrix
Functional Linear Mixed Models for Irregularly or Sparsely
Sampled Data
Interface to ACM TOMS Algorithm 636, for computing sparse
Hessians.
Numerical estimation of sparse Hessians using ACM TOMS Algorithm
636.
Design of Portfolio of Stocks to Track an Index
Represent and Use Sparse + Low Rank Matrices
RcppEigen back end for sparse least trimmed squares regression
Multivariate normal functions for sparse covariate and precision
matrices.
Multivariate Normal Functions for Sparse Covariance and
Precision Matrices.
Multivariate Normal Functions for Sparse Covariance and
Precision Matrices
Variable Selection under Ranked Sparsity Principles for
Interactions and Polynomials
Sparse-aware Maximum Likelihood for Structural Equation Models
Solution Paths of Sparse Linear Support Vector Machine with
Lasso or ELastic-Net Regularization
Solution Paths of Sparse High-Dimensional Support Vector Machine
with Lasso or Elastic-Net Regularization
Learning Sparse Bayesian Networks from High-Dimensional Data
Utilities for Learning Sparse Bayesian Networks
Sparse and Regularized Discriminant Analysis
Computation of the Sparse Inverse Subset
Fit sparse linear regression models via nonconvex optimization
Fit Sparse Linear Regression Models via Nonconvex Optimization
Sparse Principal Component Analysis (SPCA)
Sparse Bayesian Models for Regression, Subgroup Analysis, and
Panel Data
Sparse Truncated Singular Value Decomposition (from 'SVDLIBC')
A Package for Sparse VAR/VECM Estimation
Spike-and-Slab Variational Bayes for Linear and Logistic
Regression
Spartan (Simulation Parameter Analysis R Toolkit ApplicatioN)
Simulation Parameter Analysis R Toolkit ApplicatioN: Spartan
Simulation Parameter Analysis R Toolkit ApplicatioN: 'spartan'
Study Planning and Adaptation of Sample Size
Inference for Spatiotemporal Partially Observed Markov Processes
Arbitrarily Shaped Multiple Spatial Cluster Detection for Case Event Data.
Spatio-temporal modeling of large data using a spectral SPDE
approach
Spatio-Temporal Modeling of Large Data Using a Spectral SPDE
Approach
Graph Edge Computations for Spatial Point Patterns
Functions for Kriging and Point Pattern Analysis
Hierarchical spatial generalized extreme value (GEV) modeling
with Bayesian Model Averaging (BMA)
R functions for working with spatial data.
R Functions for Working with Spatial Data
Spatial Clustering using Fuzzy Geographically Weighted
Clustering
Computation of Spatial Covariance Matrices for Data on Rectangles Using One Dimensional Numerical Integration and Analytic Results
Computation of spatial covariance matrices for data on rectangles
Computation of spatial covariance matrices for data on
rectangles
Computation of Spatial Covariance Matrices for Data on
Rectangles
Spatial Analysis and Modelling Utilities
Easy Spatial Modeling with Random Forest
Spatial Analysis of Vectra Immunoflourescent Data
Estimation of spatial tail dependence models
Application of 2D Convolution Kernel Filters to Matrices or 3D
Arrays
Multivariate Analysis of Spatial Data Using a Unifying Spatial
Fusion Framework
Nonparameteric estimation of spatial segregation in a
multivariate point process
Non-Parametric Estimation of Spatial Segregation in a
Multivariate Point Process
Nonparameteric estimation of spatial segregation
in a multivariate point process
Performs spatial NBDA in a Bayesian context
Calculating Concentration Risk under Solvency II
Segregation measures for multitype spatial point patterns
Segregation Measures for Multitype Spatial Point Patterns
Spatial Early Warning Signals of Ecosystem Degradation
Converts Spatial Data to Javascript Object Notation (JSON) for
Use in Htmlwidgets
Formats Spatial Data for Use in Htmlwidgets
Group Animal Relocation Data by Spatial and Temporal
Relationship
Spatial Point Pattern analysis, model-fitting, simulation, tests
Spatial Point Pattern Analysis, Model-fitting, Simulation, Tests
Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Spatial Point Pattern analysis, model-fitting and simulation
Extension to 'spatstat' for Large Datasets on a Linear Network
Core Functionality of the 'spatstat' Package
Core Functionality of the 'spatstat' Family
Exploratory Data Analysis for the 'spatstat' Family
Geometrical Functionality of the 'spatstat' Package
Geometrical Functionality of the 'spatstat' Family
Interactive Graphics Functions for the 'spatstat' Package
Linear Networks Functionality of the 'spatstat' Package
Linear Networks Functionality of the 'spatstat' Family
Extension to 'spatstat' for Local Composite Likelihood
Parametric Statistical Modelling for the 'spatstat' Family
Random Generation Functionality for the 'spatstat' Family
Sparse Three-Dimensional Arrays and Linear Algebra Utilities
Experimental Subset of 'spatstat' Utilities
Bayesian spatial survival analysis with parametric proportional
hazards models.
Bayesian Spatial Survival Analysis with Parametric Proportional
Hazards Models
Statistical Process Control -- Collection of Some Useful
Functions
Statistical Process Control -- Calculation of ARL and Other
Control Chart Performance Measures
Statistical Process Control for Stochastic Textured Surfaces
Functions for calibrating control charts
Functions for Calibrating Control Charts
Selective phenotyping for experimental crosses
Spatial Coverage Sampling And Random Sampling From Compact
Geographical Strata
Spatial Coverage Sampling and Random Sampling from Compact
Geographical Strata
Sparse Estimation of a Covariance Matrix
Spatial dependence: weighting schemes, statistics and models
Spatial Dependence: Weighting Schemes, Statistics and Models
Spatial Dependence: Weighting Schemes, Statistics
Spatial Downscaling Using Bias Correction Approach
Data Manipulation Verbs for the Spatial Classes
Spatio-dynamic wetland plant communities model
Spatio-Dynamic Wetland Plant Communities Model
A Wrapper for the Phonetic Software Praat
A Wrapper for the Phonetic Software 'Praat'
Tools for Nuclear Magnetic Resonance (NMR) spectrum alignment
and quantitative analysis.
Tools for Nuclear Magnetic Resonance Spectrum Alignment and
Quantitative Analysis
Tools for Nuclear Magnetic Resonance (NMR) Spectra Alignment,
Peak Based Processing, Quantitative Analysis and Visualizations
Wavelet Based Tools for Feature-Wise Analysis and Quantification
of Nuclear Magnetic Resonance (NMR) Spectra
Jackknife Euclidean / Empirical Likelihood Inference for
Spearman's Rho
A Data Specification Format and Interface
Alternative spectral clustering, with automatic estimation of k.
Prepare Species Distributions for the Use in Phylogenetic
Analyses
Specificity of personality trait-outcome (or trait-trait)
associations
Specificity of personality trait-outcome associations
Reduction of Speckle Data from BTA 6-m Telescope
Metabolomics and Spectral Data Analysis and Mining
Conducting and Visualizing Specification Curve Analyses
Single-Equation Penalized Error-Correction Selector (SPECS)
Storing, Manipulating and Analysis Spectroscopy and Associated
Data
Calculate the Periodogram of a Time-Course
Common Methods of Spectral Data Analysis
Singular Spectrum Analysis (SSA) tools for time series analysis
Singular Spectrum Analysis (SSA) Tools for Time Series Analysis
Pre-Process, Visualize and Analyse Process Analytical Data, by
Spectral Data Measurements Made During a Chemical Process
Approximate Gaussian processes using the Fourier basis
Approximate Gaussian processes Using the Fourier Basis
Approximate Gaussian Processes Using the Fourier Basis
Learning Graphs from Data via Spectral Constraints
Obtain and Visualize Spectral Reflectance Data for Earth Surface
Polygons
Spectra Visualization, Organizer and Data Preparation
Spectra Viewer, Organizer, Data Preparation and Property Blocks
Class and Methods for Hyperspectral Data
Access the Speechs and Speaker's Informations of House of
Representatives of Brazil
A GUI based importing and filtering tool
Package containing the required libraries (jars) for speedR
Fitting Linear and Generalized Linear Models to large data sets.
Fitting Linear and Generalized Linear Models to Large Data Sets
Automate Code for Adding Labels, Renaming Variables, and
Converting ASCII Files
Automate Code for Adding Labels, Recoding and Renaming
Variables, and Converting ASCII Files
Semiparametric efficient estimation for a two-sample treatment
effect
Semiparametric Efficient Estimation for a Two-Sample Treatment
Effect
Correct the Spelling of a Given Word in the English Language
A Bi-Dimensional Implementation of the Empirical Mode
Decomposition for Spatial Data
Auxiliary functions to estimate centers of biodiversity
Auxiliary Functions to Estimate Centers of Biodiversity
Spatial Error Estimation and Variable Importance
Perform Spatial Error Estimation and Variable Importance in
Parallel
Perform Spatial Error Estimation and Variable Importance
Assessment
SPEW Framework for Generating Synthetic Ecosystems
Spatial Extent as Polygons with Projection
Function-on-Scalar Regression with Group-Bridge Penalty
Semiparametric Spatial Filtering with Eigenvectors in
(Generalized) Linear Models
Spatial Stochastic Frontier models estimation
Pre-Processing and Analysis of Mid-Infrared Spectral Region
Interface between GRASS 6.0 geographical information system and R
Interface between GRASS 6 geographical information system and R
Interface between GRASS 6+ geographical information system and R
Interface Between GRASS 6+ Geographical Information System and R
Statistical Patterns in Genomic Sequences
Spatial Models with heteroskedastic innovations
Estimation of spatial autoregressive models with and without
heteroskedastic innovations
Estimation of Spatial Autoregressive Models with and without
Heteroscedasticity
Estimation of Spatial Autoregressive Models with and without
Heteroskedastic Innovations
Uniformity Tests on the Circle, Sphere, and Hypersphere
Wrapper for the Social Progress Index Data
Parse and Test Robots Exclusion Protocol Files and Rules
Bayesian variable selection and model choice for generalized
additive mixed models
Bayesian Variable Selection and Model Choice for Generalized
Additive Mixed Models
Detecting Election Fraud from Irregularities in Vote-Share
Distributions
Prediction and variable selection using spike and slab
regression
Prediction and Variable Selection Using Spike and Slab
Regression
Semi-Parametric Gene-Environment Interaction via Bayesian
Variable Selection
Investigating New Projection Pursuit Index Functions
Manual Tours, Manual Control of Dynamic Projections of Numeric
Multivariate Data
Sparse Generative Model and Its EM Algorithm
Manage Data from Cardiopulmonary Exercise Testing
Spatial and Space-Time Point Pattern Analysis
Simple Process-Led Algorithms for Simulating Habitats
Tools to Work with the 'Splash' 'JavaScript' Rendering and
Scraping Service
Spatial Models for Limited Dependent Variables
Regression Spline Functions and Classes Too
Longitudinal Regression Trees and Forests
Best Split Selection Modeling for Low-Dimensional Data
Combined Evaluation and Split Access of Functions
Calculate Task Split Half Reliability Estimates
Functions to split concatenated data, conveniently stack columns
of data.frames, and conveniently reshape data.frames.
Stack and Reshape Datasets After Splitting Concatenated Values
Econometric Models for Spatial Panel Data
Simultaneous Penalized Linear Mixed Effects Models
Sparse Partial Least Squares (SPLS) Regression
Sparse Partial Least Squares (SPLS) Regression and
Classification
Insightful package providing missing S-PLUS functionality in R
Utility Functions for Common Base-R Problems Relating to Lists
Wrapper Functions for SPM (Statistical Parametric Mapping)
Version 12 from the Wellcome Trust Centre for Neuroimaging
Wrapper Functions for 'SPM' (Statistical Parametric Mapping)
Version 12 from the 'Wellcome' Trust Centre for 'Neuroimaging'
Spatial Statistical Modeling and Prediction
Moran's Eigenvector-Based Spatial Regression Models
Moran Eigenvector-Based Spatial Regression Models
Moran Eigenvector-Based Scalable Spatial Additive Mixed Modeling
Moran Eigenvector-Based Scalable Spatial Additive Mixed Models
Fast Spatial Regression using Moran Eigenvectors
Moran Eigenvector-Based Spatial Additive Mixed Models
Spatial Network Autocorrelation for Flow Data
Scale Invariant Probabilistic Neural Networks
R interface to many species occurrence data sources
R Interface to Many Species Occurrence Data Sources.
R Interface to Species Occurrence Data Sources
Interface to Species Occurrence Data Sources
Blur 'HTML' Elements in 'Shiny' Applications Using
'Spoiler-Alert.js'
Spongebob-Case Converter : spOngEboB-CASe CoNVertOR
SpongeBob-Case Converter : spOngEboB-CASe CoNVertOR
SpongeBob-Case Converter : spOngEboB-CASe CoNVertER
Transform a Movie into a Synthetic Picture
Time Feature Extrapolation Using Spectral Analysis and
Jack-Knife Resampling
Semiparametric proportional odds rate model
Semiparametric Proportional Odds Rate Model
Sequential Pairwise Online Rating Techniques
Plot Scaled 'ggplot' Representations of Sports Playing Surfaces
Graphical User Interface for the Package 'SPOT'
Providing Convenience Functions to Connect R with the Spotify
API
Pull Track Audio Features from the 'Spotify' Web API
Spatiotemporal Clustering of Satellite Hot Spot Data
Modeling Spatial Poisson and Related Point Processes
Testing for Spatial Structure of Qualitative Data in Cross
Section
Testing for Structure of Qualitative Data in Spatial Cross
Sectional Panels
Testing for Spatial Independence of Qualitative Data in Cross
Section
Sparse Arrays and Multivariate Polynomials
Simulating Spreading Activation in a Network
Evaluation of Sprinkler Irrigation Uniformity and Efficiency
Calculate Species Richness and Extrapolation Metrics
Sparse Group Variable Selection for Gene-Environment
Interactions in the Longitudinal Study
Framework for Screening Prognostic Interactions
Sparse and Non-Sparse Partial Robust M Regression
Sparse and Non-Sparse Partial Robust M Regression and
Classification
Sequential Probability Ratio Tests: Using t-Statistic
Spatial Random Effects Clustering of Single Cell Data
'systemPipeShiny' UI and Server Components
Optimization of Sample Configurations using Spatial Simulated
Annealing
Selecting Spatial Scale of Covariates in Regression Models
Estimation and Prediction of Parameters of Various Soil
Hydraulic Property Models
Shape-Preserving Uni-Variate and Bi-Variate Spline Interpolation
spsmooth: An Extension Package for 'mgcv'.
Read SPSS System files and produce valid DDI Version 3.0
documents
Read SPSS System files and produce valid DDI Version 3.0 documents
Spatial Seemingly Unrelated Regression Models
Bernstein Polynomial Based Semiparametric Survival Analysis
Constrained Spatiotemporal Mixed Models for Exposure Estimation
Predicting Totals and Weighted Sums from Spatial Data
Functions and Datasets for "An Introduction to Scientific
Programming and Simulation, Using R".
Functions and Datasets for "Introduction to Scientific
Programming and Simulation Using R".
Functions and Datasets for "Introduction to Scientific
Programming and Simulation Using R"
Creating and manipulating spatial weights matrices
Wrapper for 'Python' Module 'sqlparse': Parse, Split, and Format
'SQL'
R Utilities for Generating SQL Queries from Model Objects
Utilities for Generating SQL Queries from Model Objects
Subgroup Identification Based on Quantitative Objectives
Color-based plots for multivariate visualization
Color-Based Plots for Multivariate Visualization
Politely Web Scrape Data from SquashInfo
Group-Adaptive Elastic Net Penalised Generalised Linear Models
Statistical Quantification of Individual Differences
Simplify Connections to Database Sources
Semiparametric Model-Assisted Estimation in Finite Population
Semiparametric Model-Assisted Estimation in Finite Populations
Structural Equation Modeling for the Social Relations Model
Smooth-Rough Partitioning of the Regression Coefficients
'dplyr'-Like Syntax for Summary Statistics of Survey Data
Fisheries stock assessment simulation testing with Stock
Synthesis
Fisheries Stock Assessment Simulation Testing with Stock
Synthesis
Bayesian State-Space Modeling of Mouse-Tracking Experiments via
Stan
Sample Size Adjusted for Nonadherence or Variability of input
parameters
Sample Size Adjusted for Nonadherence or Variability of input parameters
Sample Size Adjusted for Nonadherence or Variability of Input
Parameters
Robust Correlation Estimation and Testing Based on Spatial Signs
Sample Size Determination (SSD) for Unordered Categorical Data
Sample Size Computation for Fixed N with Optimal Reward
Fitting of parametric models using summary statistics
Fitting of Parametric Models using Summary Statistics
Bayesian Graphical Estimation using Spike-and-Slab Priors
Bayesian Graph Structure Learning using Spike-and-Slab Priors
Local and remote system commands with output and error capture.
Sample Size Calculations for Microarray Experiments
Sample Size Calculation for RNA-Seq Data
Sample Size Calculation for RNA-Seq Experimental Design
Skew Scale Mixtures of Normal Distributions
Robust estimation and inference in sample selection models
Robust Estimation and Inference in Sample Selection Models
Scale-Shape Mixtures of Skew-Normal Distributions
Spatial Surplus Production Model Framework for Northern Shrimp
Populations
Estimating Hidden Population Size using Respondent Driven
Sampling Data
Sample Size Determination for Longitudinal Designs with Binary
Outcome
Tools for importing files in the triple-s .(Standard Survey
Structure) format
Tools for Importing Files in the Triple-s (Standard Survey
Structure) Format
Import Files in the Triple-s (Standard Survey Structure) Format
Same Species Sample Contamination Detection
Swiss Solvency Test (SST) Standard Models
Fitting Semiparametric Symmetric Regression Models
Fitting Semi-parametric Symmetric Regression Models
Fitting Semi-parametric Log-symmetric Regression Models
Fitting Semi-Parametric log-Symmetric Regression Models
Shrinkage t Statistic and Correlation-Adjusted t Score
Shrinkage t Statistic and Correlation-Adjusted t-Score
Spatio-Temporal Uncertainty Propagation Across Multiple Scales
Seasonal Trend Analysis for Time Series Imagery in R
Statistical Tools for Social Network Analysis
data analysis of drug stability for shelf life estimation
Stability Analysis of Genotype by Environment Interaction (GEI)
Probability Functions and Generalized Regression Models for
Stable Distributions
A Stable Gelman-Rubin Diagnostic for Markov Chain Monte Carlo
Stability Assessment of Statistical Learning Methods
Stable Specification Search in Structural Equation Models
Stability Measures for Feature Selection
Linear Regression with the Stable Distribution
ODBC Connection Class for Package stacomiR
'ODBC' Connection Class for Package stacomiR
Modelling the Population Dynamics of a Stage-Structured Species
in Continuous Time
Efficient Estimation Under Staggered Treatment Timing
Spatial Temporal Analysis of Moving Polygons
Bayesian Additive Regression Trees with Stan-Sampled Parametric
Extensions
Tools for Standardizing Variables for Regression in R
Ecotoxicological Information from the Standartox Database
Simultaneous Truth and Performance Level Estimation
LaTeX code for well-formatted regression and summary statistics
tables
LaTeX code and ASCII text for well-formatted regression and
summary statistics tables
LaTeX/HTML code and ASCII text for well-formatted regression and
summary statistics tables
Well-Formatted Regression and Summary Statistics Tables
Modelling Space Time AutoRegressive Moving Average (STARMA)
Processes
Population Structure Model Inference and Visualisation
Scalable, Spatiotemporal Tidy Arrays for R
Spatiotemporal Arrays, Raster and Vector Data Cubes
Miscellaneous Functions for Working with 'stars' Rasters
Automatically Retrieve Multidimensional Distributed Data Sets
A Generic, Publisher-Independent Template for Writing Scientific
Documents in 'rmarkdown'
Vector Logistic Smooth Transition Models / Realized Covariances
Construction
Vector Logistic Smooth Transition Models Estimation and
Prediction
R-Based Visualization Techniques for Task-Based Applications
Relational Data from the 'Star Wars' API for Learning and
Teaching
A Set of Tools for Administering SHared Repositories
Highest Density Regions and Other Functions of Distributions
Basic Functions to Statistical Methods Course
Statistical Analysis of Metabolite Profile
Tools Inspired by Stata to Clean, Explore and Join Datasets
Tools inspired by Stata to manipulate tabular data
Tools Inspired by Stata to Manipulate Tabular Data
Tools Inspired by 'Stata' to Manipulate Tabular Data
Launch and Interact with a 'Stata' Session
Client for Statistics Canada's Open Economic Data
Extract statistics from articles and recompute p values
Extract Statistics from Articles and Recompute P Values
Extract Statistics from Articles and Recompute p Values
Statistical Complexity and Information Measures for Time Series
Analysis
statebins is an alternative to choropleth maps for USA States
U.S. State Cartogram Heatmaps in R; an Alternative to Choropleth
Maps for USA States
Create United States Uniform Cartogram Heatmaps
Shapefiles for the Contiguous United States of America
High Throughput Phenotyping (HTP) Data Analysis
QTL Mapping for Multi Parent Populations
Single Trial Analysis (STA) of Field Trials
Get Hourly Meteorological Data from Global Stations
Detailed Meteorological Data from Stations All Over the World
Working Examples for Reproducible Research Documents
Statistical Functions for Probability Distributions
Statistical Functions for Probability Distributions and
Regression
Functions for Teaching Statistical Modeling
Software tools for the Statistical Modeling of Network Data
Software tools for the Statistical Analysis of Network Data
Software Tools for the Statistical Analysis of Network Data
Common R Scripts and Utilities Used by the Statnet Project
Software
A Graphical User Interface for Network Modeling with 'Statnet'
Use Data from the Czech Public Finance Database
Quotes on Statistics, Data Visualization and Science
Work with Open Road Traffic Casualty Data from Great Britain
A Wrapper for the API of Statistics Denmark
Expressions and Dataframes with Statistical Details
Dataframes and Expressions with Statistical Details
Tidy Dataframes and Expressions with Statistical Details
An Interface for the 'STAT Search Analytics' 'API'
Extract, Visualize and Analyze Cricket Statistics from
ESPNCricinfo's Statsguru
Companion Software for the Coursera Statistics with R
Specialization
Tools for Inference with Set-Theoretic Comparative Methods
Calculate the Standardized Difference for Numeric, Binary and
Category Variables
Standardized Moderation Effect and Its Confidence Interval
ICA and Tests of Independence via Multivariate Distance
Covariance
Testing Steepness of Dominance Hierarchies
Hawkes and Log-Gaussian Cox Point Processes Using Template Model
Builder
Evolutionary Tracks and Isochrones from Pisa Stellar Evolution
Database
Stemmatological Analysis of Textual Traditions
Standardization of Raw Discrete Questionnaire Scores
Stepwise Forward Variable Selection in Penalized Regression
L2 penalized logistic regression with a stepwise variable selection
L2 penalized logistic regression with a stepwise variable
selection
L2 Penalized Logistic Regression with Stepwise Variable
Selection
A Step-Down Procedure to Control the False Discovery Proportion
Stepwise Variable Selection for Generalized Boosted Regression
Modeling
Variable Selection for Joint Modeling of Mean and Dispersion
Subpopulation Treatment Effect Pattern Plot (STEPP)
Stepwise Predictive Variable Selection for Random Forest
Spatially- and Temporally-Explicit Population Simulator
Stepwise detection of recombination breakpoints
Steve's Toy Data for Teaching About a Variety of Methodological,
Social, and Political Topics
Klimontovich's S-Theorem Algorithm Implementation and Data
Preparation Tools
Persist Object Attributes Across Data Operations
Persist Attributes Across Data Operations
Data Frames with Persistent Columns and Attributes
Separable Gaussian Process Interpolation (Emulation)
Simultaneous Threshold Interaction Modeling Algorithm
Stineman, a consistently well behaved method of interpolation
Stineman, a Consistently Well Behaved Method of Interpolation
STL Decomposition and ARIMA Hybrid Forecasting Model
Hybrid Forecasting Model Based on STL Decomposition and ELM
STL Decomposition and TDNN Hybrid Time Series Forecasting
Tidy Manipulation of CSB Data for St. Louis
Spatio-Temporal Analysis of Point Patterns on Linear Networks
Enhanced Seasonal Decomposition of Time Series by Loess
Estimation of the Structural Topic Model
A Tool for Structural Topic Model Visualizations
Rapid and Accurate Genetic Prediction Modeling for Genome-Wide
Association or Whole-Genome Sequencing Study Data
Shiny Application for Creating STM Models
A 'Shiny' Application for Inspecting Structural Topic Models
Functions for the Analysis of Star Trek Thematic Data
Download, Explore, and Analyze Literary Theme Ontology Data
Fit a spatial occupancy model via Gibbs sampling
Fit a Spatial Occupancy Model via Gibbs Sampling
Stochastic Limited Memory Quasi-Newton Optimizers
R Package for Fitting Stochastic General Epidemic Models
Stochastic Profiling using Maximum Likelihood Estimation
Efficient Bayesian Inference for Stochastic Volatility (SV)
Models
Likelihood Estimation of Stochastic Volatility Models
Equity Valuation using Methods of Fundamental Analysis
Build stock models and analyze stock portfolios.
Analyze Chess Games with the Stockfish Engine
Analyze Chess Games with the 'Stockfish' Engine
Fast Functions for Stock Market Analysis
R Functions for Solving Stoichiometric Equations
Stop Detection in Timestamped Trajectory Data using
Spatiotemporal Clustering
Access Data from the Norwegian Parliament API
Explore Twitter Trends with the 'Storywrangler' API
Stochastic Simulator for Reliability Modeling of Repairable
Systems
Stochastic Model for Analysis of Longitudinal Data
Stochastic Process Model for Analysis of Longitudinal and
Time-to-Event Outcomes
Space-Time Point Pattern simulation, visualisation and analysis
Space-Time Point Pattern Simulation, Visualisation and Analysis
Perform residual analysis on space-time point process models.
Convert R Objects from One Structure to Another
A Framework for Investment Strategy Simulation
Estimation of Biological Parameters from Stranded Cetaceans
Simple Toolkit in R for ANomalies Get, Explain and Report
Stratigraphic Tree Analysis for Palaeontology
An Implementation of the Stratification Index
Summaries and Population Structure Analyses of Haplotypic and
Genotypic Data
Summaries and Population Structure Analyses of Genetic Data
Optimum Sample Allocation in Stratified Random Sampling Scheme
Optimum Sample Allocation in Stratified Sampling Schemes
Stratification and Matching for Large Observational Data Sets
Stratified Spherical Approximate Conditional Modeling
Optimal Stratification in Stratified Sampling
Univariate stratification of Survey Populations
Univariate Stratification of Survey Populations
Optimal Stratification of Univariate Populations
Toolkit for the plotting and analysis of stratigraphic and
palaeontological data
Optimal Stratification in Stratified Sampling Optimization
Algorithm
Fast Implementation of Reading/Dump for .hic Files
Anomaly Detection in High Dimensional and Temporal Data
Building and analyzing binary stream networks
Estimate Streamflow Depletion Due to Groundwater Pumping
Interface for MOA Stream Clustering Algorithms
Parametric Ordinary Differential Equations Model of Growth,
Death, and Respiration of Macroinvertebrate and Algae Taxa
Functions to help the process of learning structural equation
modelling
Streamlined Estimation of Survival for Static, Dynamic and
Stochastic Treatment and Monitoring Regimes
Fetch and plot financial stress index and component data.
Approximate string matching and string distance functions.
Approximate String Matching and String Distance Functions
Approximate String Matching, Fuzzy Text Search, and String
Distance Functions
PPI and Gaussian Network Construction from Transcriptomic
Analysis Results Integrating a Multilevel Factor
Fast and Portable Character String Processing Facilities
Simple, Consistent Wrappers for Common String Operations
Drop-in Replacements for Base String Functions Powered by
'stringi'
Structured Trellis Displays Without Strips for Lattice Graphics
Testing, Monitoring and Dating Structural Changes
Testing, Monitoring, and Dating Structural Changes
Testing, Monitoring, and Dating Structural Changes: C++ Version
Multiple Testing for Hypotheses with Hierarchical or Group
Structure
STRUctural Modeling of Latent Variables for General Pedigree
Internal validation of forensic STR kits made easy with
strvalidator.
Process Control And Internal Validation Of Forensic STR Kits
Process Control and Internal Validation of Forensic STR Kits
Process Control and Validation of Forensic STR Kits
Class and Methods for Structural Time Series Models
Subtests Using Algorithmic Rummaging Techniques
Tidy Handling and Navigation of the Student-Life Dataset
Study Strap and Multi-Study Learning Algorithms
functions for a variety of stylometric analyses
Functions for a variety of stylometric analyses
Functions for a Variety of Stylometric Analyses
LaTeX descriptive statistic reporting for survey data
Detect Subgroup with an Enhanced Treatment Effect
Methods for exploring treatment effect heterogeneity in subgroup
analysis of clinical trials
Combine Multiple GWAS by Using Gene-Environment Interactions
Automatic Lesion Incidence Estimation and Detection using
Multi-Modality Longitudinal Magnetic Resonance Images
Effect Modification in Observational Studies Using the Submax
Method
Within Outlying Mean Index Analysis: Exploratory Niche Methods
Within Outlying Mean Indexes: Refining the OMI Analysis
Unconstrained Optimization using the Subplex Algorithm
Computes copula using ranks and subsampling
Computes Copula using Ranks and Subsampling
Subsample Winner Algorithm for Variable Selection in Linear
Regression with a Large Number of Variables
Sub-Score Computing Functions in Classical Test Theory
SubScore Computing Functions in Classical Test Theory
Computing Subscores in Classical Test Theory
Computing Subscores in Classical Test Theory and Item Response
Theory
Systematic Screening of Study Data for Subgroup Effects
An Ensemble Method for Combining Subset-Specific Algorithm Fits
Subgroup Treatment Effect Estimation in Clinical Trials
Cluster analysis to find molecular subtypes and their assessment
Survival Control Charts Estimation Software
Identify Sudden Gains in Longitudinal Data
Tools for Making and Spoiling Sudoku Games
Tools for Making, Displaying and Spoiling Sudoku Games
Sudoku Puzzle (9*9 12*12 16*16) Generator and Solver
Plots to help optimising diabetes therapy
Supporting Graphs for Analysing Time Series
Fast Region-Based Association Tests on Summary Statistics
Approximates Summation of Discrete Series
Permutation True Discovery Guarantee by Sum-Based Tests
Easy Calculation and Visualisation of Confidence Intervals
Dataframe Summaries, Frequency Tables and Numerical Summaries
with Customizable Output
Dataframe Summaries, Frequency Tables and Descriptive Stats with
Various Output Formats
Dataframe Summaries, Frequency Tables and Descriptive Stats with
Flexible Output Formats
Tools to Quickly and Neatly Summarize Data
Module to Compute Influence and Leverage Statistics for
Regression Models with Clustered Errors
'Htmlwidget' for 'Kerry Rodden' 'd3.js' Sequence Sunburst
'Htmlwidget' for 'Kerry Rodden' 'd3.js' Sequence and 'd2b'
Sunburst
Compute Sun Position, Sunlight Phases, Moon Position and Lunar
Phase
An Interface to 'SUNDIALS' Ordinary Differential Equation (ODE)
Solvers
The Self-Updating Process Clustering Algorithms
Supervised Clustering of Predictor Variables such as Genes
Supervised Clustering of Predictor Variables Such as Genes
Implements the supervised multidimensional scaling (superMDS)
proposal of Witten and Tibshirani (2011)
Get Precision of Means Under Various Designs and Sampling
Schemes
Generating Robust Biclusters from a Bicluster Set (Ensemble
Biclustering)
R Code for Testing Markov Chain Nonconvergence
A Comprehensive Test Suite for Testing Markov Chain
Nonconvergence
A Graphical Tool for Exploring Complex Datasets Using Heatmaps
Build Machine Learning Models Like Using Python's Scikit-Learn
Library in R
Judd & McClelland Formatting for ANOVA Output
Judd, McClelland, & Ryan Formatting for ANOVA Output
Supervised Classification Learning and Prediction using Patient
Rules Induction Method (PRIM)
Supervised Classification Learning and Prediction using Patient
Rule Induction Method (PRIM)
Downloading Supplementary Data from Published Manuscripts
Basic functions for supporting an implementation of best-worst
scaling
Basic Functions for Supporting an Implementation of Best-Worst
Scaling
Basic Functions for Supporting an Implementation of Case 2
Best-Worst Scaling
Basic Functions for Supporting Case 3 Best-Worst Scaling
Basic functions for supporting an implementation of choice
experiments
Basic Functions for Supporting an Implementation of Choice
Experiments
Calculates Likelihood Support Intervals for Common Data Types
Modeling Tool for 'Shiny' Applications Developed with Modules
Companion to "Statistics Using R: An Integrative Approach"
Bayesian Analysis of Seemingly Unrelated Regression Models
Surrogate Residuals for Ordinal and General Regression Models
A Novel Multi-Disease Automated Phenotyping Method for the EHR
Fitting Hansen models to investigate convergent evolution
Fitting Hansen Models to Investigate Convergent Evolution
Evaluation of Failure Time Surrogate Endpoints in Individual
Patient Data Meta-Analyses
Inference for model-free between-group parameters for censored
survival data.
Inference for Model-Free Between-Group Parameters for Censored
Survival Data
Estimators of prediction acuracy for time-to-event data.
Estimators of prediction accuracy for time-to-event data.
Estimators of Prediction Accuracy for Time-to-Event Data
Two-Sample Tests Based on Differences of Kaplan-Meier Curves
Estimate accuracy measures for risk prediction markers from
survival data
Fits a proportional hazards model to time to event data by a Bayesian approach
Fits a proportional hazards model to time to event data by a
Bayesian approach
Concordance Based Bootstrap Methods for Outlier Detection in
Survival Analysis
C-statistics for risk prediction models with censored survival
data
C-Statistics for Risk Prediction Models with Censored Survival
Data
Plots Survival Curves Element by Element
Comparing Multiple Survival Functions via Empirical Likelihood
(EL) Based Tests
Comparing Multiple Survival Functions with Crossing Hazards in R
Comparing Multiple Survival Functions with Crossing Hazards
Survival Analysis in Health Economic Evaluation
IDI and NRI for comparing competing risk prediction models with
censored survival data
IDI and NRI for Comparing Competing Risk Prediction Models with
Censored Survival Data
Survival prediction by joint analysis of microarray gene
expression data
Survival prediction of microarray gene expression data using
joint analysis methods
Survival Prediction by Joint Analysis of Microarray Gene
Expression Data
Miscellaneous functions for survival data
Miscellaneous functions for survival data.
Miscellaneous Functions for Survival Data
Parametric Survival Simulation with Parameter Uncertainty
Multidimensional Penalized Splines for Survival and Net Survival
Models
Presmoothed Estimation in Survival Analysis
Flexible and Coherent Test/Estimation Procedure Based on
Restricted Mean Survival Times
Permutation Test for Comparing Restricted Mean Survival Time
Estimating, Comparing and Visualising Time to Event Data
Power and Sample Size Calculations for SNP Association Studies
with Censored Time to Event Outcomes
Power Calculations for SNP Studies with Censored Outcomes
Sensitivity Analysis with Time-to-Event Outcomes
Nonparametric Spearman's Correlation for Survival Data
Performance Assessment and Comparison for Survival Analysis
Time Series Models for Disease Surveillance
Outbreak detection algorithms for surveillance data
Modeling and monitoring discrete response time series
Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic
Phenomena
Explainable Machine Learning in Survival Analysis
Relative survival, AER and SMR based on French death rates
Relative Survival, AER and SMR Based on French Death Rates
Tools for the Bootstrap with Survey Data
Generate a Survey that can be Completed by Survey Respondents
Survey Standard Error Estimation for Cumulated Estimates and
their Differences in Complex Panel Designs
Inference and Prediction in an Illness-Death Model
Continuous Biomarker Assessment by Exhaustive Survival Analysis
Survival analysis, including penalised likelihood.
Fit High-Dimensional Proportional Hazards Models
Eliminate the Influence of Co-Expression Genes on Target Genes
High-Level Interface for Survival Analysis and Associated Plots
Estimation of the Bivariate Distribution Function
Estimation of the bivariate distribution function
Penalised Maximum Likelihood for Survival Analysis Models
Penalised Likelihood for Survival Analysis with Dependent
Censoring
Nonparametric Estimation of the Distribution of Gap Times for
Recurrent Events
Time-dependent ROC curve estimation from censored survival data
Data from all Seasons of Survivor (US) TV Series in Tidy Format
Design of Clinical Trials with Survival Endpoints Based on
Binary Responses
Excel Conversion of R Surival Analysis Output
Survival analysis for recurrent event data
Simulation of simple and complex survival data
Simulation of Simple and Complex Survival Data
Plotting Survival Curves with Numbers at Risk Table
Compute Targeted Minimum Loss-Based Estimates in Right-Censored
Survival Settings
Visualization of the Local and Global Survival Model
Explanations
Forecasting Data using Alpha-Sutte Indicator
'SciViews' - Standard Dialog Boxes for Windows, MacOS and
Linuxes
SciViews - Standard Dialog Boxes for Windows, MacOS and Linuxes
SciViews GUI API - Dialog boxes using Tcl/Tk
'SciViews' - Standard Dialog Boxes using Tcl/Tk
SciViews GUI API - Functions to manage GUI client
SciViews GUI API - Functions to manage GUIs
SciViews GUI API - IDE and code editor functions
Functions to Ease Interactions Between R and IDE or Code Editors
SciViews GUI API - Functions to interface with Komodo Edit/IDE
'SciViews' - Functions to Interface with Komodo IDE
SciViews GUI API - Miscellaneous functions
'SciViews' - 'Sweave', 'Knitr' and R Markdown Companion
Functions
SciViews GUI API - Tools (wrapper for packages tools and
codetools)
Wrappers for Tools in Other Packages for IDE Friendliness
'SciViews' - Unit, Integration and System Testing
Management of GUI Widgets, Windows, and Other GUI Resources
Surrogate variable analysis using partial least squares in a
gene expression study.
Data-Driven Identification of SVAR Models
2d and 3d Space-Varying Coefficient Models
Interfaces to various state-of-art SVD and eigensolvers
Interfaces to Various State-of-Art SVD and Eigensolvers
R 'Htmlwidget' to Add Pan and Zoom to Almost any R Graphic
3D Animated Interactive Visualizations using SVG
3D Animated Interactive Visualizations Using SVG
3D Animated Interactive Visualizations Using SVG and WebGL
Manipulate SVG (Template) Files of Charts
Linear/Nonlinear SVM Classification Solver Based on ADMM and
IADMM Algorithms
Implementation of Support Vector Machines Plus (SVM+)
Tools for Creating, Updating, and Analyzing Survey Replicate
Weights
A package for complex surveys including plausible values
Package for complex surveys including plausible values
Design-Based Inference in Vector Generalised Linear Models
Linear Regression Model Diagnostics for Survey Data
Stepped Wedge Cluster Randomized Trial (SW CRT) Design
Subsampling Winner Algorithm for Classification
Dynamically Generates Documentation from a 'Swagger' Compliant
API
Analysis and visualization of high-dimensional data in respect
to sample annotations.
Visualization, analysis and adjustment of high-dimensional data
in respect to sample annotations.
Visualization, Analysis and Adjustment of High-Dimensional Data
in Respect to Sample Annotations
A Null Model Adapted to Abundance Class Data in Ecology
Read, Inspect, and Manipulate Color Swatch Files
Sliding Window Discrete Fourier Transform (SWDFT)
Power Calculation for Stepped Wedge Cluster Randomized Trials
An R interface to the web API of Statistics Sweden
Speedy Word Embedding Association Test and Extras Using R
Southwest Fisheries Science Center Aerial DAS Data Processing
Southwest Fisheries Science Center Shipboard DAS Data Processing
Miscellaneous Functions for Southwest Fisheries Science Center
Simulation Extrapolation Inverse Probability Weighted
Generalized Estimating Equations
Tools for Creating Swimmers Plots using 'ggplot2'
Multilevel Regression with Post-Stratification (MrP) for
Switzerland
Get Swiss Federal and Cantonal Vote Results from Opendata.swiss
Interface to the Webservices of the Swiss Parliament
An Agile Widget Engine for Real-Time, Dynamic Visualizations
A Simple and Flexible Switch-Case Construct for the 'R' Language
Switching nonparametric regression models for a single curve and
functional data
Installing, Managing, and Switching Between Distinct Sets of
Installed Packages
Publish Package Manifests to GitHub Gists
SyBiL - Efficient constrained based modelling in R
sybil - Efficient Constrained Based Modelling in R
Efficient Constrained Based Modelling in R
Dynamic FBA : dynamic flux balance analysis
Dynamic FBA : Dynamic Flux Balance Analysis
Using gene expression data to improve flux balance analysis
predictions
Using Gene Expression Data to Improve Flux Balance Analysis
Predictions
Cost Constrained FLux Balance Analysis: MetabOlic Modeling with
ENzyme kineTics (MOMENT)
Cost Constrained Flux Balance Analysis (ccFBA): MetabOlic
Modeling with ENzyme kineTics (MOMENT)
cycle-Free Flux balance analysis: Efficient removal of
thermodynamically infeasible cycles from metabolic flux
distributions
Cycle-Free Flux Balance Analysis (CycleFreeFlux)
Syllable Counting and Readability Measurements
Syllabifier for CMU Dictionary Transcriptions
A Small Collection of Syllable Counting Functions
Hyphenation and Syllable Counting for Text Analysis
Language Support for 'sylly' Package: English
Autoregressive and Moving Average Symmetric Models
Symbolic Computation for Structural Equation Models
Testing for Symmetry of Data and Model Residuals
Symbolic Central Moments of the Multivariate Normal Distribution
Symbolic central moments of the multivariate normal distribution
Symbolic Central and Noncentral Moments of the Multivariate
Normal Distribution
Symbolic central and noncentral moments of the multivariate
normal distribution
Efficient and Precise Single-Cell Reference Atlas Mapping
Synthetic RNA-Seq Network Generation and Mutual Information
Estimates
Framework for the analysis of genomic prediction data using R
Framework for the Analysis of Genomic Prediction Data using R
Methods for computing spatial, temporal, and spatiotemporal
statistics
Methods for Computing Spatial, Temporal, and Spatiotemporal
Statistics
Calculate and Visualize Synergy Scores for Drug Combinations
Synthesize Dense or Sparse Functional Data/Snippets
Synthetic Likelihood methods for intractable likelihoods.
Synthetic Likelihood Methods for Intractable Likelihoods
Synoptic Climate Classification and Spatial Regionalization of
Environmental Data
Explore and Process Synesthesia Consistency Test Data
An 'SPSS' Syntax Generator for Multi-Variable Manipulation
Synthetic Microdata and Spatial MicroSimulation Modeling for ACS
Data
Generate Synthetic Data from Statistical Models
Import, Assemble, and Deduplicate Bibliographic Datasets
Generating synthetic versions of sensitive microdata for
statistical disclosure control
Generating Synthetic Versions of Sensitive Microdata for
Statistical Disclosure Control
Powerful and Reliable Tools for Running System Commands in R
coding kernel for S/R and OS compatability
Send Log Messages to Remote 'syslog' Server
Estimating Systems of Simultaneous Equations
Extracts Sentiment and Sentiment-Derived Plot Arcs from Text
Interim Monitoring of Clinical Trials with Time-Lagged Outcome
Proportional Odds Model with Censored, Time-Lagged Categorical
Outcome
Bayesian Trophic Position Calculation with Stable Isotopes
Likelihood Ratio Statistics for One or Two Sample T-Tests
Collection of utility and convenience functions, and some
interesting spatial functions
Collection of utility and convenience functions.
Collection of Utility and Convenience Functions
Functions for creating summary tables for statistical reports.
Functions for creating summary tables for statistical reports
Functions for Creating Summary Tables for Statistical Reports
Create Summary Tables for Statistical Reports
Write Formatted Tables in Excel Workbooks
Building 'data.table' Expressions with Data Manipulation Verbs
Build 'data.table' Expressions with Data Manipulation Verbs
Make and Apply Customized Rounding Specifications for Tables
Tables of Descriptive Statistics in HTML
Produces summary tables in the format most often encountered in
scientific articles, and exports them to spreadsheet format
(.xls or .xlsx)
Produces summary tables and exports them to multi-tab
spreadsheet format (.xls or .xlsx)
Produces Summary Tables and Exports Them to Multi-Tab
Spreadsheet Format (.xls or .xlsx)
Exports Reproducible Summary Tables to Multi-Tab Spreadsheet
Files (.xls or .xlsx)
Combines 'data.table' and 'matrix' Classes
Create Publication Quality Tables and Plots
Create 'Table 1' to Describe Baseline Characteristics
Create 'Table 1' to Describe Baseline Characteristics with or
without Propensity Score Weights
Create "Table 1" to describe baseline characteristics
Create "Table 1" to Describe Baseline Characteristics
Represents tables as semi-graphic displays
Presentation-Quality Tables, Displayed Using 'ggplot2'
Tabulate Descriptive Statistics in Multiple Formats
Fit 'TabNet' Models for Classification and Regression
Get Data from 'Taboola' via the 'Windsor.ai' API
Tableplot, a visualization of large statistical datasets
Tableplot, a visualization of large datasets
Tableplot, a Visualization of Large Datasets
A graphical user interface for the tabplot package
Tabplotd3, interactive inspection of large data
Music Notation Syntax, Manipulation, Analysis and Transcription
in R
Tabu Search Algorithm for Binary Configurations
Analysis, Seriation and Visualization of Archaeological Count
Data
Analysis and Visualization of Archaeological Count Data
Efficient Tabulation with Stata-Like Output
Bindings for 'Tabula' PDF Table Extractor Library
Parsing Semi-Structured Log Files into Tabular Format
User-Friendly Tables with Color Helpers for Data Exploration
Positron Emission Tomography Time-Activity Curve Analysis
New and Extended Plots, Methods, and Panel Functions for
'lattice'
Helpers for Data Analysis and Presentation Focused on Undergrad
Psychology
Minimum Distance Estimation of Tail Dependence Models
Symmetric Transformation of Tails for Plotting Differences
Estimate the Probability in the Upper Tail of the Aggregate Loss
Distribution
Tool for Annotating Images in Preparation for Analysis
Analysis of Differential Calorimetry Scans
Design Shaded Contour Lines (or Tanaka) Maps
Anonymization of Spatial Point Patterns and Raster Objects
Tools for accessing UK parliamentary information in R
Wrapper for 'tapkee' Dimension Reduction Library
Trait Matching and Abundance for Predicting Bipartite Networks
Text Analysis with Rules and Dictionaries for Inferring
Sentiment
Dynamic Function-Oriented 'Make'-Like Declarative Workflows
Analysis and Prediction of Bicycle Rental Amount
Schedule R Scripts and Processes with the Windows Task Scheduler
Get Data Out of 'Tautulli' (Formerly 'PlexPy')
Provides various portfolio optimization strategies including
random matrix theory and shrinkage estimators
Clean Covariance Matrices Using Random Matrix Theory and
Shrinkage Estimators for Portfolio Optimization
Classes for Storing and Manipulating Taxonomic Data
A High-Performance Local Taxonomic Database Interface
A Lightweight and Lightning-Fast Taxonomic Naming Interface
Taxonomic search and phylogeny retrieval.
Taxonomic information from around the web.
Taxonomic Information from Around the Web
Tools for Working with 'Taxonomic' Databases
Combined Analysis of NCBI Taxonomy and GBIF Taxonomy
Create Custom Taxonomies Based on the NCBI Taxonomy and GBIF
Backbone Taxonomy
Functions to Work with NCBI Accessions and Taxonomy
Color Palettes Generated by Taylor Swift Albums
Lyrics and Song Data for Taylor Swift's Discography
Estimation of Causal Effects with Outcomes Truncated by Death
Functions for tuberculosis diagnostics research
Convert Tibbles or Data Frames to Xts Easily
Tree-Based Moving Average Forecasting Model
Data Analysis of T-cell Receptor Repertoires
Advanced Data Analysis of T-Cell Receptor Repertoires
Advanced Data Analysis of T Cell Receptor Repertoires
Advanced Data Analysis of Immune Receptor Repertoires
MLE of a Truncated Normal Distribution with Censored Data
Visualization Tool for the Cancer Genome Atlas Program (TCGA)
Time-Course Gene Set Analysis for RNA-Seq Data
Testing in Conditional Likelihood Context
Concentration-Response Modeling of HTS or Transcriptomics Data
Access to the 'twelvedata' Financial Data API
Nonparametric Estimation of Time-Dependent ROC Curve from Right
Censored Survival Data
Uniform Manifold Samplers for Topological Data Analysis
Automating the Creation of Stan Code for TDCMs
Wicked Fast, Accurate Quantiles Using t-Digests
Distribution of a linear combination of independent Student's t-variables
TDM - A Tool for Therapeutic Drug Monitoring
A Tool for Therapeutic Drug Monitoring (TDM)
Data Analysis for Therapeutic Drug Monitoring
Apps for Teaching Statistics, R Programming, and Shiny App
Development
Solve for Leaf Temperature Using Energy Balance
Send Formatted Messages, Images and Objects to Microsoft 'Teams'
An Implementation of the Typicality and Eccentricity Data
Analysis Framework
Fit and Tune Models to Detect Treatment Effect Heterogeneity
teigen: Model-based clustering and classification with the
multivariate t-distribution
Model-based clustering and classification with the multivariate
t-distribution
Model-Based Clustering and Classification with the Multivariate
t Distribution
Estimation and Prediction for Remote Effects Spatial Process
Models
Methods for Temporal Disaggregation and Interpolation of Time
Series
Methods for Temporal Disaggregation and Interpolation of
TimeSeries
Estimate Brain Networks Using Empirical Population Priors
Provides ZENIT-POLAR Substitution Cipher Method of Encryption
Advanced tensors arithmetic with named indices
Advanced Tensor Arithmetic with Named Indices
Blind Source Separation Methods for Tensor-Valued Observations
Basic Functions to Handle Tensor Data in Array Class
Factor and Autoregressive Models for Tensor Time Series
Tensor Noise Reduction and Completion Based on Ordinal
Observations
Generalized Tensor Regression with Covariates on Multiple Modes
Supervised Tensor Decomposition with Interactive Side
Information
Supervised Tensor Decomposition with Side Information
Nonparametric Tensor Completion via Sign Series
Multiway Clustering via Tensor Block Models
Covariance Inference and Decompositions for Tensor Datasets
Fit, Simulate and Diagnose Models for Network Evoluation based
on Exponential-Family Random Graph Models
Fit, Simulate and Diagnose Models for Network Evolution based on
Exponential-Family Random Graph Models
Fit, Simulate and Diagnose Models for Network Evolution Based on
Exponential-Family Random Graph Models
Fast Simulation of Simple Temporal Exponential Random Graph
Models
Create, Manipulate and Query Parameter Terms
Tests of Uniformity and Independence for Terminal Digits
Term Structure and Credit Spread Estimation
Visualisation, verification and calibration of ternary
probabilistic forecasts
Visualisation, Verification and Calibration of Ternary
Probabilistic Forecasts
Triangulate and Simplify 3D Terrain Meshes
Landscape Visualizations in R and 'Unity'
Easily Install and Load 'tesselle' Packages
Teaching Data for Statistics and Data Science
Test (Multiple) Arguments of a User-Defined Prediction Algorithm
A Hypothesis Testing Framework for Validating an Assay for
Precision
Bootstrap Tests for Equality of 2, 3, or 4 Population Variances
Tests and checks characteristics of R objects
Testthat code.  Tools to make testing fun :)
Testthat code. Tools to make testing fun :)
A mocking, stubbing, and file testing framework extending
testthat
Utils and 'RStudio' Addins to Make Testing Even More Fun
Testing One Hypothesis Twice in Observational Studies
Satisfaction Analysis using Tetraclasse Model and Llosa Matrix
Automatic Sequence Prediction by Expansion of the Distance
Matrix
Compile and Preview Snippets of 'LaTeX' in 'RStudio'
Threshold exceedences and multivariate extremes
Treatment Effect eXplorer for Microbial Ecology eXperiments
(using Sequence Counts)
Conversion of R regression output to LaTeX tables.
Conversion of R regression output to LaTeX or HTML tables.
Conversion of R Regression Output to LaTeX or HTML Tables
Analyses of Text using Natural Language Processing and Machine
Learning
Analyses of Text using Transformers Models from HuggingFace,
Natural Language Processing and Machine Learning
R Tools for Text Matrices, Embeddings, and Networks
Detecting UN Sustainable Development Goals in Text
Fast and Modern Text Mining Framework - Vectorization and Word
Embeddings
Fast Text Mining Framework for Vectorization and Word Embeddings
Text Processing for Small or Big Data Files
Functions for Text Cleansing and Text Analysis
Discovering Latent Treatments in Text Corpora and Estimating
Their Causal Effects
An Easy Text and Sentiment Analysis Library
Functions for Matching with Text-Based Confounding
Functions for Text Mining and Topic Modeling
Integration of Text Mining and Topic Modeling Packages
Textual Data Analysis Package used by the TXM Software
Textual Data Analysis Package Used by the TXM Software
Summarize Text by Ranking Sentences and Finding Keywords
n-gram Text Regression, aka Concise Comparative Summarization
n-Gram Text Regression, aka Concise Comparative Summarization
Detect Text Reuse and Document Similarity
Bindings to the 'HarfBuzz' and 'Fribidi' Libraries for Text
Shaping
Fits Piecewise Polynomial with Data-Adaptive Knots in Cox Model
Training Run Directories for 'TensorFlow'
Globe and Mail Graphics Theme for 'ggplot2'
The Standard Distribution Functions for the Truncated
Generalised Gamma Distribution
Efficient Implementation of K-Means++ Algorithm
Binary Regressions under Independent Student-t Priors
Functions to compute and plot tracheidograms
Amos Tanay's Group High Performance Statistical Utilities
Turing Geovisualization Engine R package
Find Out Who Maintains the Packages you Use
Tools for Handling Extraction of Features from Time Series
Unified and Automatic 'Theming' of 'ggplot2', 'lattice', and
'base' R Graphics
Exploring Thematic Structure and Predicted Functionality of 16s
rRNA Amplicon Data
Extra Recipes Steps for Dealing with Unbalanced Data
Temperature Measurement with Thermocouples, RTD and IC Sensors
Analysis and Visualization Tools for Microbial Community Data
R Package for Exploring Turkish Higher Education Statistics
Palettes Inspired by the TV Show "The Witcher"
Threshold Matching for Thick Description for Optimal Matching in
Observational Studies
Get Executing Script's Filename, Anywhere
Get Executing Script's Path, from 'RStudio', 'Rgui', 'VSCode',
'Rscript' (Shells Including Windows Command-Line / / Unix
Terminal), and 'source'
Get Executing Script's Path, from 'RStudio', 'RGui', 'Rscript'
(Command-Line / / Terminal), and when using 'source'
Get Executing Script's Path, from 'RStudio', 'RGui', 'Rterm' and
'Rscript' (Command-Line / / Terminal), and when using 'source'
Get Executing Script's Path, from 'RStudio', 'RGui', 'Rterm' and
'Rscript' (Command-Line / / Terminal), and When Using 'source'
Get Executing Script's Path, from 'RStudio', 'Rgui', 'Rscript'
(Command-Line / / Terminal), and 'source'
Get Executing Script's Path, from 'RStudio', 'Rgui', 'Rscript'
(Shells Including Windows Command-Line / / Unix Terminal), and
'source'
'HTMLwidgets' Displaying Some 'WebGL' Shaders
Thresholded variable selection and prediction based on
estimating equations
Interactive 3D Scatter Plots, Networks and Globes
Download Charitable Grants from the '360Giving' Platform
Represent Precise Coordinates in Three Words
Threshold Regression for Interval-Censored Data with Cure-Rate
or without Cure-Rate Model
Threshold Regression for Interval Censored Data with Cure-Rate
or without Cure-Rate Model
Threshold Regression for Interval-Censored Data with a Cure Rate
Option
Threshold Selection and Uncertainty for Extreme Value Analysis
Three-Stage Least Squares Estimation for Systems of Simultaneous
Equations
Computation and Visualisation of Atmospheric Convective
Parameters
Table One for 'Latex', 'Word', and 'Html' 'R Markdown' Documents
Functions for Timing R Scripts, as Well as Implementations of
Stack and List Structures
Functions for timing R scripts, as well as implementations of
Stack and List structures.
Functions for Timing R Scripts, as Well as Implementations of
"Stack" and "List" Structures
Quick Table Generation & Exploratory Analyses on ADaM-Ish
Datasets
Tidy C++ Header-Only Definitions for Parts of the C API of R
Disaster Data Set Including FEMA, EMDAT and GTD Information
Easily Carry Out Latent Profile Analysis
Easily Carry Out Latent Profile Analysis (LPA) Using Open-Source
or Commercial Software
A Pipeline for Microbiome Analysis and Visualization
Helper Functions for Working with REDCap Data
Helper Functions for Working with 'REDCap' Data
Interface to USDA QuickStats Data with Mapping Capabilities
A Minimal Tool Set for Gathering USDA Quick Stat Data for
Analysis and Visualization
Tidy Data and 'Geoms' for Bayesian Models
Expand broom::tidy() Output for Categorical Parameter Estimates
Expand Tidy Output for Categorical Parameter Estimates
Read Tabular Data from Diverse Sources and Easily Make Them Tidy
Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Data Modifcation and Analysis for Communication Research
Data Modification and Analysis for Communication Research
Tidy Common Workflow Language Tools and Workflows
Regularized Linear Modeling with Tidy Data
Tidy Verbs for Fast Data Operations by Reference
Tidy Verbs for Dealing with Genomic Data Frames
Extract and Tidy Canadian 'Hydrometric' Data
Some Information-Theoretic Functions in the 'Tidy' Style
A Grammar for Turning 'JSON' into Tidy Tables
Shared Infrastructure of 'Tidylab' Package Collection
Latent Dirichlet Allocation Using 'tidyverse' Conventions
Logging for 'dplyr' and 'tidyr' Functions
Easily Install and Load the 'Tidymodels' Packages
Tidy Model Visualisation for Generalised Additive Models
A Tidy Approach to 'NetCDF' Data Exploration and Extraction
Analysis of the Nigeria National Data Repository (NDR)
Tidy Tools for Paleoenvironmental Archives
Parse Full Text XML Documents from PubMed Central
Bayesian Analysis to Compare Models using Resampling Statistics
A Convenient API for Accessing United States Census Bureau's
Quarterly Workforce Indicator
Easily tidy data with spread and gather functions.
Easily Tidy Data with spread() and gather() Functions.
Easily Tidy Data with `spread()` and `gather()` Functions
Easily Tidy Data with 'spread()' and 'gather()' Functions
Obtain Rules from Rule Based Models as Tidy Dataframe
Tidy Processing and Analysis of Biological Sequences
Customizable Lists of Stopwords in 53 Languages
Customisable Stop-Words in 110 Languages
String Distance Calculation with Tidy Data Principles
A Tidy Implementation of the Synthetic Control Method
Importing and Analyzing 'Twitter' Data Collected with 'Twitter
Archiving Google Sheets'
'tidyverse' Methods and 'ggplot2' Utils for 'terra' Objects
'tidyverse' Methods and 'ggplot2' Helpers for 'terra' Objects
Text Mining using 'dplyr', 'ggplot2', and Other Tidy Tools
A Collection of Tools and Helpers Extending the Tidyverse
Read, Validate, Analyze, and Map Files in the General Transit
Feed Specification
Read, Validate, Analyze, and Map Files in the General Transit
Feed Specification (GTFS)
Read, Validate, Analyze, and Map GTFS Feeds
Tidy Methods for Bayesian Treatment Effect Models
A Tidy Tool for Phylogenetic Tree Data Manipulation
Access the Weekly 'TidyTuesday' Project Dataset
Easily Install and Load 'Tidyverse' Packages
VPC Percentiles and Prediction Intervals
Explore 'Wikidata' Through Tidy Data Frames
Pre-Process of Time Series Data Set in R
R Tools for Inferring New Immunoglobulin Alleles from Rep-Seq
Data
Infers Novel Immunoglobulin Alleles from Sequencing Data
Load Census TIGER/Line Shapefiles into R
Access to TikTok Ads via the 'Windsor.ai' API
A Device for R Graphics Output in PGF/TikZ Format
Hidden Markov Models for ChIP-on-Chip Analysis
Universal Storage Engine for Sparse and Dense Multidimensional
Arrays
Sparse and Dense Multidimensional Array Storage Engine for Data
Science
Create Geographic and Non-Geographic Map Tiles
Variable selection via Tilted Correlation Screening algorithm
Variable Selection via Tilted Correlation Screening Algorithm
Calculate Wood Volumes from Taper Functions
Survival and Competing Risk Analyses with Time-to-Event Data as
Covariates
Rmetrics - Chronological and Calendar Objects
Time-dependent ROC curve and AUC for censored survival data
Time-Dependent ROC Curve and AUC for Censored Survival Data
Detecting Differentially Expressed Genes in Time Course RNA-Seq
Data
Financial Time Series Objects (Rmetrics)
Time Delay Estimation for Stochastic Time Series of
Gravitationally Lensed Quasars
Infer Constant and Stochastic, Time-Dependent Model Parameters
Simplified and Extensible Time Series Coercion Tools
A Collection of Tools for Working with Time Series in R
Timeline and Time Duration-Related Tools
Time-ordered and time-aggregated network analyses
Time-Ordered and Time-Aggregated Network Analyses
timereg package for Flexible regression models for survival
data.
Flexible regression models for survival data.
Flexible Regression Models for Survival Data
Bootstrap computations for time series objects
Store and Organize Time Series in a Database
Manage Time Series with R and PostgreSQL
Manage Time Series for Official Statistics with R and PostgreSQL
A Time Series Database for Official Statistics with R and
PostgreSQL
A Tool Kit for Working with Time Series in R
provides objects and tools to manipulate irregular unhomogeneous
time data and subtime data.
provides objects and tools to manipulate irregular heterogeneous
time data and subtime data.
Seasonal/Sequential (Instants/Durations, Even or not) Time
Series
Seasonal/Sequential (Instants/'Durations', Even or not) Time
Series
Interface to the TimeTree of Life Webpage
Create Interactive Timeline Visualizations in R
Target Inhibition Interaction using Maximization and
Minimization Averaging
TIMe Series Analysis and Control package
Time Series Analysis and Control Package
Cast '(R)Markdown' Files to 'XML' and Back Again
A Lightweight Template for Data Analysis Projects
Expression Data Analysis and Visualization
Get and Show Personal 'Google Scholar' Profile
Tinyverse R Wrapper for the 'Spotify' Web API
Lightweight but Feature Complete Unit Testing Framework
Lightweight and Feature Complete Unit Testing Framework
Helper Functions to Install and Maintain 'LaTeX', and Compile
'LaTeX' Documents
Helper Functions to Install and Maintain 'TeX Live', and Compile
'LaTeX' Documents
Helper Functions to Install and Maintain TeX Live, and Compile
LaTeX Documents
Lightweight Interface to TIGER/Line Shapefiles
Extract 'TIOBE' Programming Index Tables for the Latest Month
Bayesian Clustering Using the Table Invitation Prior (TIP)
Tau-Independent Phase Analysis for Circadian Time-Course Data
Data and Tools for Analyzing the Pali Canon
Tipping Point Analysis for Bayesian Dynamic Borrowing
Automated measure-based classification for flint tools
Automated measure-based classification for lithic tools
Add Tooltips to 'R markdown' Documents or 'Shiny' Apps
Tools for Handling Indices and Proportions in Small Area
Estimation
Titration analysis for mass spectrometry data
Isotonic Designs for Phase 1 Trials with Late-Onset Toxicities
Time-to-event continual reassessment method and calibration tools
Acid/Base, Complexation, Redox, and Precipitation Titration
Curves
Simple Image Viewer for R Using the 'tcltk' Package
Interface for the 'Julia' 'TKTD' Simulator 'TKTDsimulations.jl'
The T-LARS Algorithm: Early-Terminated Forward Variable
Selection
T Loux Doing R: Functions to Simplify Data Analysis and
Reporting
Effects under Linear, Logistic and Poisson Regression Models
with Transformed Variables.
Effects under Linear, Logistic and Poisson Regression Models
with Transformed Variables
Linear Student-t Mixed-Effects Models with Censored Data
Two-level normal independent sampling estimation
Two-Level Normal Independent Sampling Estimation
Low-Rank Methods for MVN and MVT Probabilities
Tools of Total Least Squares in Error-in-Variables Models
Transitive Locality-Sensitive Hashing (LSH) for Record Linkage
Import texts from files in the Alceste format using the tm text
mining framework
Import articles from Europresse using the tm text mining
framework
Import Articles from 'Europresse' Using the 'tm' Text Mining
Framework
A plug-in for the tm text mining framework to import articles
from Factiva
Import articles from Factiva using the tm text mining framework
Import Articles from 'Factiva' Using the 'tm' Text Mining
Framework
Full Corpus Support for the 'koRpus' Package
Import articles from LexisNexis using the tm text mining
framework
Import Articles from LexisNexis Using the tm Text Mining
Framework
Import Articles from 'LexisNexis' Using the 'tm' Text Mining
Framework
Retrieve structured, textual data from various web sources
Retrieve Structured, Textual Data from Various Web Sources
The Integration Between 'IBM COGNOS TM1' and R
MCMC Sampling from 'TMB' Model Object using 'Stan'
Targeted Learning of a NP Importance of a Continuous Exposure
Targeted Minimum Loss Estimation (TMLE) of a NP variable
importance of a continuous exposure.
Targeted Maximum Likelihood Estimation for Network Data
Feature Set Enrichment Analysis for Metabolomics and
Transcriptomics
Sensitivity Analysis Using the Trimmed Means Estimator
Estimation of the Rasch Model for Multistage Tests
"Manage 'tmux' Sessions, Windows, and Panes"
Manage 'tmux' Sessions, Windows, and Panes
Efficient Sampling Truncated Scale of Normals with Constraints
Sampling from Truncated Multivariate Normal and t Distributions
Truncated Multivariate Normal and Student t Distribution
Truncated Multivariate Normal and t Distribution Simulation
Temporal Network Autocorrelation Models (TNAM)
Analysis of weighted and longitudinal networks
tnet: Software for Analysis of Weighted, Two-mode, and
Longitudinal networks
Software for Analysis of Weighted, Two-Mode, and Longitudinal
Networks
Weighted, Two-Mode, and Longitudinal Networks Analysis
Function for Converting Cardinal to Ordinal Numbers by Adding a
Language Specific Ordinal Indicator to the Number
Cardinal to Ordinal Number & Date Conversion
Scrape Tidy Men's College Basketball Data from Barttorvik
Extensive and Tidy NCAA Men's College Basketball Data
analytics and visualization with Aster Database
Big Data in-Database Analytics with Teradata Aster
Big Data in-Database Analytics that Scales with Teradata Aster
Distributed Platform
Interactive Tables, Calendars and Charts for the Web
Create Full Text Browsers from Annotated Token Lists
A Consistent Interface to Tokenize Natural Language Text
Fast, Consistent Tokenization of Natural Language Text
Fundamental Definitions and Utilities of the Time Oriented
Language (TOL)
Functions for calculating tolerance intervals.
Functions for calculating tolerance intervals
Functions for Calculating Tolerance Intervals
Statistical Tolerance Intervals and Regions
Official R Library for Tomba Email Finder
Make Data Based on Different Geographies Comparable
List, String, and Meta Programming Utility Functions
Top-Down Time Ratio Segmentation for Coordinate Trajectories
Topic-Specific Diagnostics for LDA and CTM Topic Models
Implementation of the hydrological model TOPMODEL in R
Implementation of the Hydrological Model TOPMODEL in R
Calculating Topographic Paths and Distances
Gene Set Analysis Exploiting Pathway Topology
Create Custom Plots for Viewing Genetic Association Results
TOPSIS method for multiple-criteria decision making (MCDM)
Import Multiple Files From a Single Directory at Once
Tensors and Neural Networks with 'GPU' Acceleration
Models, Datasets and Transformations for Images
Plots for Model Sensitivity and Variable Importance
Torus algorithm and linear congruential generators
Utility Functions by Tobias Schmidt (ToSc)
Instrumental Variables Two Stage Least Squares estimation
Create the Tree of Science from WoS and Scopus
Extract Decennial Census and American Community Survey Data
Tools of Utilization and Cost in Healthcare
Tour Methods for Multivariate Data Visualisation
Exploring Biological Relevance of Environmental Chemistry
Observations
Bootstrap Methods for 'ToxCast' High Throughput Screening Data
Batch Processing, Modeling and Visualizing the Dose-Response of
High-Throughput Screening Bioassay
Experimental design for binary toxicity tests
Estimation and Inference of Two-Way pAUC, pAUC and pODC
Counts the Number of True Positives and False Positives
Truncated Positive Normal Model and Extensions
Design and analysis of two-phase sampling and case-control
studies
Easily Save Output and Trace it Back to Code
Identifying Important Areas from Animal Tracking Data
Track Objects (last release - package name changed to 'track')
Collaborative Writing and Editing of R Markdown (or Sweave)
Documents in Google Drive
Collaborative Editing of Rmd (or Rnw) Documents in Google Drive
Infrastructure for Running and Cycling Data from GPS-Enabled
Tracking Devices
Infrastructure for Running, Cycling and Swimming Data from
GPS-Enabled Tracking Devices
Interface for the Analysis of Running, Cycling and Swimming Data
from GPS-Enabled Tracking Devices
Semantic Annotation and Discoverability System for R-Based
Artifacts
Automated Kinematic Analysis of Image Data
Basic functions for the TractoR (tractography with R) bundle
A package for reading, manipulating and visualising magnetic
resonance images
Read, Manipulate and Visualise Magnetic Resonance Images
Replication of 'An Advanced Guide To Trade Policy Analysis'
Open Trade Statistics API Wrapper and Utility Program
Estimation, Comparison and Selection of Transformations
An Interface to the National Rail Enquiries Systems
Predictive (Classification and Regression) Models Homologator
Formatting and Harmonizing Ecological Trait-Data
An interface for creating GUIs modeled in part after traits UI
module for python.
Transformation Models with Mixed Effects
Make Functions that Can Recurse Infinitely
Optimal Subset Selection for Transformation Models
Estimating a Survival Distribution in the Presence of Dependent
Left Truncation and Right Censoring
Transformation Model Based Estimation of Survival and Regression
Under Dependent Truncation and Independent Censoring
Visualize Transcript Structures in Elegant Way
Automated Transcription of Audio Files Through the HP IDOL API
Transfer of Hydrograph from Gauged to Ungauged Catchments
Sentiment Analysis for Text and Qualitative Data
Transform MOS Values to be Robust for using Rank Based
Statistics
Bindings for the Google Translate API v2
Bindings for the Google and Microsoft Translation APIs
Toolset for Translating SPSS-Syntax to R-Code
R Manuals Literally Translated in Korean
Continuous time infectious disease models on individual data.
Conducts transmission modeling on a bayesian network.
Audit and Research Functions for Transplantation
Computation of Optimal Transport Plans and Wasserstein Distances
Estimation and Simulation of Trawl Processes
Generate Treasury Total Returns from Yield Data
Sensitivity analysis for causal inference
Sensitivity Analysis for Causal Inference
Recategorization of Factor Variables by Decision Tree Leaves
Random Forest Prediction Decomposition and Feature Importance
Measure
Correction Factors for Tree Plot Areas Intersected by Stand
Boundaries
An R package for discovery, access and manipulation of online
phylogenies
Discovery, Access and Manipulation of 'TreeBASE' Phylogenies
Numerical Calibration of Proxy-Climate Relationships
Numerical calibration of proxy-climate relationships
Estimating and plotting the centre of mass of a tree.
Centre of mass assessment and consolidation of trees.
Centre of Mass Assessment and Consolidation of Trees
Manipulation of Matched Phylogenies and Data using 'data.table'
Fast Molecular Clock Dating of Phylogenetic Trees with Rate
Variation
The First Software for Quantitative Trajectory Inference
Treelets - an adaptive multi-scale basis for high-dimensional,
sparse and unordered data
An Adaptive Multi-Scale Basis for High-Dimensional, Sparse and
Unordered Data
Phylogenetic Tree Manipulation Class and Methods
Data Sets and Functions to Accompany "Tree-Based Methods for
Statistical Learning in R"
Comparison of Trees using a Tree Defining Polynomial
Exact and Asymptotic K Sample Permutation Test
'dplyr' Functionality for Matched Tree and Data Objects
Statistical Exploration of Landscapes of Phylogenetic Trees
Generate Starting Trees for Combined Molecular, Morphological
and Stratigraphic Data
Detect Population Structure Within Phylogenetic Trees
Methods for Tree-Based Local Adaptive Thresholding
Methods for Tree-based Local Adaptive Thresholding
A Shiny-Based Application for Extracting Forest Information from
LiDAR Data
Create and Navigate Large Multi-Panel Visual Displays
Easily Send Rewards and Incentives with 'Tremendous' from R
Non-Parametric Trend Tests and Change-Point Detection
Innovative Trend Analysis and Time-Series Change Point Analysis
Linear Trend Segmentation and Point Anomaly Detection
Truncated exact test for two-stage case-control design for
studying rare genetic variants
Provides the Standard Distribution Functions for the Triangle
Distribution
Provides the standard distribution functions for the triangle distribution
Provides the standard distribution functions for the triangle
distribution
Analysing and Visualizing Tribology Measurements
A Flexible Color Scale for Ternary Compositions
Some basic facilities for ternary fields and plots
Data Set of Trig Points in Great Britain in British National
Grid Coordinates
Trimmed opinion pools of trees in a random forest
Information on all of the TriMet Stops in the Portland Metro
Area
An Implementation of Common Response Time Trimming Methods
Statistical Tests for Assessing Trinormal ROC Data
Processing and Simulating Genotype Data for Trio Logic
Regression
Detection of disease-associated SNP interactions in case-parent
trio data
Testing of SNPs and SNP Interactions in Case-Parent Trio Studies
A data smoothing approach to explore and test gene-environment
interaction in case-parent trio data
Tools for the Analysis of Animal Track Data
Metropolis sampler and supporting functions for estimating animal movement from archival tags and satellite fixes
Metropolis sampler and supporting functions for estimating
animal movement from archival tags and satellite fixes
Metropolis Sampler and Supporting Functions for Estimating
Animal Movement from Archival Tags and Satellite Fixes
Triangulation of irregularly spaced data
Triangulation of Irregularly Spaced Data
Explaining Correlated Features in Machine Learning Models
Identification of 2n and 3n Samples from Amplicon Sequencing
Data
Tools for Analyzing Cross-National Military Deployment and
Basing Data
Pseudo-Vectors Containing All Permutations and Combinations of
Objects Taken from a Vector.
Pseudo-Vectors Containing All Permutations, Combinations and
Subsets of Objects Taken from a Vector.
Read, Validate, and Analyze Files in the General Transit Feed
Specification
Bayesian Methods to Estimate the Proportion of Liars in Coin
Flip Experiments
Implementation the TrueSkill algorithm in R
Two-Sample Nonparametric Testing Under Heterogeneity
Semi-parametric estimators of truncated regression models
GoF tests allowing for left truncated data
Estimates Moments for a Truncated Normal Distribution using
'Stan'
Historical Retail Data from the 'Trundler' API
Trust region nonlinear optimization, efficient for sparse
Hessians
Trust Region Optimization for Nonlinear Functions with Sparse
Hessians
Create Trusted Timestamps of Datasets and Files
Advanced 'tryCatch()' and 'try()' Functions
Stationary Gaussian ARMA Processes and Other Time-Series
Utilities
Tools for Blind Source Separation for Time Series
Tools for Blind Source Separation and Supervised Dimension
Reduction for Time Series
Blind Source Separation and Supervised Dimension Reduction for
Time Series
Time series analysis based on dynamical systems theory
Nonlinear time series models with regime switching
Nonlinear Time Series Models with Regime Switching
Time Series Modeling for Air Pollution and Health
Improved Prediction Intervals for ARIMA Processes and Structural
Time Series
Calculate normalising constants for Bayesian time series models.
Likelihood-ratio Tests for Two-Sample Comparisons
Terribly-Simple Data Base for Time Series
Two-/Three-Stage Designs for Phase 1&2 Clinical Trials
Dynamic Ensembles for Time Series Forecasting
Fetching Tweet Data for Sentiment Analysis
Time series analysis and computational finance
Time Series Analysis and Computational Finance
Entropy Based Analysis and Tests for Time Series
Time Series Forecasting Using Nearest Neighbors
Time Series Forecasting using Nonlinear Growth Models
Interactive Graphics for Tsibble Objects
Least angle regression for time series analysis
Tools for Temporal Social Network Analysis
T-distributed Stochastic Neighbor Embedding for R (t-SNE)
T-Distributed Stochastic Neighbor Embedding for R (t-SNE)
Constructing Dynamic Networks for Time-Series Data
Automatic Detection of Outliers in Time Series
Instance feature calculation and evolutionary instance
generation for the traveling salesman problem.
Instance Feature Calculation and Evolutionary Instance
Generation for the Traveling Salesman Problem
Applications of the Qn Estimator to Time Series (Univariate and
Multivariate)
Two Stage Residual Inclusion Additive Hazards Estimator
Robust Preprocessing of Time Series Data
Simulation of Daily and Monthly Time Series
A Time Series Toolbox for Official Statistics
Time Series Exploration, Modelling and Forecasting
Easy and Interactive Time Series Visualization
Timescale-Specific Variance Ratio for Use in Community Ecology
Bayesian Modelling of Extremal Dependence in Time Series
Genome-wide DNA methylation sites screening by use of training
and testing samples.
Genome-Wide DNA Methylation Sites Screening by Use of Training
and Testing Samples
Barycenter Methods for Spatial Point Patterns
Three-Term Conjugate Gradient for Unconstrained Optimization
Translate Neurodevelopmental Event Timing Across Species
Standard Backtests for Technical Trading Rules in Financial Data
A Service for Tidy Transcriptomics Software Suite
R Client for the YouTube Analytics and Reporting API
Tufte-style html document format for rmarkdown
Tukeys Trend Test via Multiple Marginal Models
Tune Random Forest of the 'ranger' Package
Find every match, or orphan, duplicate or triplicate values
Find every match, or orphan, duplicate, triplicate, or other
replicated values
A Suite of Convergence Acceleration Schemes for EM and MM
algorithms
A Suite of Convergence Acceleration Schemes for EM, MM and other
fixed-point algorithms
A Suite of Convergence Acceleration Schemes for EM, MM and Other
Fixed-Point Algorithms
Turn vectors and lists of vectors into indexed structures
Student-friendly package to mask common functions,
straight-to-the-point with examples for help,
and deskcheck() for debugging student defined functions.
Student-friendly package to mask common functions,
straight-to-the-point with examples for help,
and deskcheck() for debugging User defined functions.
Convert R Markdown Files to DataCamp Light HTML Files
Time-Varying Coefficients Linear Regression for Single and
Multiple Equations
Time-Varying Coefficient Linear Regression for Single and
Multi-Equations
Time-Varying Coefficient for Single and Multi-Equation
Regressions
The Time-Varying (Right-Truncated) Geometric Distribution
Discounting and Compounding Calculations for Various Scenarios
TV Show Themes and Color Palettes for 'ggplot2' Graphics
Toolkit for Weighting and Analysis of Nonequivalent Groups
Toolkit for Weighting and Analysis of Nonequivalent Groups -
Continuous Exposures
Twang Causal Mediation Modeling via Weighting
Gradient Boosting for Linkage Failure in FSRDCs
Evaluation of Tweedie Exponential Family Models
Twitter Collector and Export to 'postGIS'
Twitter Collector and Export to 'SQLite', 'postGIS' and 'GIS'
Format
Twitter Collector for R and Export to 'SQLite', 'postGIS' and
'GIS' Format
Interactive manipulation of R expressions
Get Twitter Ads Data via the 'Windsor.ai' API
Render a Twitter Status in R Markdown Pages
Two-Way Latent Structure Clustering Model
Two-stage cluster sample bootstrap algorithm
Compute thresholds and power for two-stage gwas
DE Analysis for Single-Cell RNA-Sequencing Data
Optimal design of two-stage-studies using the Mean Score method
Two-Way Tests in Independent Groups Designs
A two-way semilinear model for normalization and analysis of cDNA microarray data.
A two-way semilinear model for normalization and analysis of
cDNA microarray data.
Efficient Estimation of the Causal Effects of Stochastic
Interventions
A Small Message Queue for Parallel Processes
Support Types for Variables, Arguments, and Return Values
Auto-Check Types, Dimensions, and Values of Function Arguments
Process and Analyze Agilent Cary 620 FTIR Microscope Images
Estimate Univariate Gaussian or Student's t Mixture
Autoregressive Model
Estimate Univariate Gaussian and Student's t Mixture
Autoregressive Models
Construct an Unsupervised Hidden Markov Model
Parse Browser 'User-Agent' Strings into Data Frames
Unmanned Aerial Vehicle Remote Sensing Tools
Get Cryptocurrency Related Data by Upbit
PKPD, PBPK, and Systems Pharmacology Modeling Tools
Bayesian Models for Data from Unmarked Animals using 'Stan'
UC Berkeley graduate division thesis template
The Universal Character Encoding Detector
Clustering and Classification Inference with U-Statistics
UCMINF - Unconstrained Nonlinear Optimization
Tokenization, Parts of Speech Tagging, Lemmatization and
Dependency Parsing with the 'UDPipe' 'NLP' Toolkit
interface to Unidata's routines to convert units
Risk Measure Calculation in Financial TS
Quantile Regression Modeling for Unit-Gompertz Responses
Uncertainty Intervals and Sensitivity Analysis for Missing Data
'R' 'Markdown' Themes for 'UIUC' Documents and Presentations
Reproducible Data Retrieval from the UK Data Service
Generate Universally Unique Lexicographically Sortable
Identifiers
Uniform Manifold Approximation and Projection
Tools for Analyzing Sequencing Data with Unique Molecular
Identifiers
Statistical Software Development with UML and R
Helper Functions for Structural Equation Modelling in OpenMx
Structural Equation Modelling in R with OpenMx
Structural Equation Modelling in R with 'OpenMx'
Structural Equation Modeling in R with 'OpenMx'
Structural Equation and Twin Modeling in R
Structural Equation Modeling and Twin Modeling in R
The package implements different data-driven method for
unbalanced datasets
Function estimation via Unbalanced Haar wavelets
Function Estimation via Unbalanced Haar Wavelets
Uncertainty Estimation and Contribution Analysis
UNC Men's Basketball Match Results Since 1949-1950 Season
Uncorrelated Bets via Minimum Torsion Algorithm
Calculator of Understandability Metrics for BPMN
Stereological Unfolding for Spheroidal Particles
Makes Multiple Contingency Tables of a Data Frame
Collate Gene Annotation Data from Uniprot and NIH Gene Databases
Extract Matched Substrings Using a Pattern
Penalized Composite Link Model for Efficient Estimation of
Smooth Distributions from Coarsely Binned Data
Handle Data with Messy Header Rows and Broken Values
A Survival Tree Based on Stabilized Score Tests
A Survival Tree Based on Stabilized Score Tests for
High-dimensional Covariates
Univarate shrinkage prediction in the Cox model
Uniforms and customizes plots of packages ggplot2, graphics and
lattice
Unimodal penalized spline regression using B-splines
Unimodal Penalized Spline Regression using B-Splines
Uniform Sampling of Directed Acyclic Graphs
A Unifying API for Calling the 'Unity' '3D' Video Game Engine
Graphical Elements of the University of Konstanz's Corporate
Design
Abbreviate Strings to Short, Unique Identifiers
Finding Unique or Duplicated Rows or Columns for Atomic Matrices
Assessment and Evaluation of Formations in United
Parametric Quantile Regression Models for Bounded Data
Measurement Units of Physical Quantities for R Vectors
Assessing Essential Unidimensionality Using External Validity
Information
Maximum Likelihood Estimation for Univariate Densities
Unpivot Complex and Irregular Data Layouts
Analysis and Graphics for Unreplicated Experiments
Extract Text from Rich Text Format (RTF) Documents
Stationarity Test Based on Unsystematic Sub-Sampling
United Nations General Assembly Voting Data
Updated Classification Methods using Unlabelled Data
Updated Classification Methods using Unlabeled Data
Uplift Model Evaluation with Plots and Metrics
'HTMLWidget' Wrapper of 'UpSet.s' for Exploring Large Set
Intersections
'HTMLWidget' Wrapper of 'UpSet.js' for Exploring Large Set
Intersections
Utilities Powering the Globe and Mail's Data Journalism Template
Get Data Frame Representations of 'Elasticsearch' Results
Unifying Estimation Results with Binary Dependent Variables
Unit root and cointegration tests for time series data
Unit Root and Cointegration Tests for Time Series Data
Run CRAN URL Checks from Older R Versions
R Wrapper for the Bit.ly, Goo.gl and Is.gd URL Shortening
Services
R Wrapper for the 'Bit.ly', 'Goo.gl' and 'Is.gd' URL Shortening
Services
R Wrapper for the 'Bit.ly' and 'Is.gd'/'v.gd' URL Shortening
Services
Vectorised Tools for URL Handling and Parsing
Unit root tests and graphics for seasonal time series.
Unit Root Tests and Graphics for Seasonal Time Series
Unit Root Tests for Seasonal Time Series
Non-Interactive Spatial Tools for Raster Processing and
Visualization
US 2010 Census SF2 Geographic Header Summary Levels 010-050
United States Copyright Office Product Management Division SR
Audit Data Dataset Cleaning Algorithms
Request USDA MPR Historical Data via the 'LMR' API
Data on the States and Counties of the United States
USDC and Centre Stablecoin Blockchain Data
Uncertainty analysis for species distribution models
Uncertainty Analysis for Species Distribution Models
A Collection of Useful Functions by John
Boilerplate Code for 'Tidymodels' Analyses
Userfriendlyscience: quantitative analysis made accessible
Automate Analytic Project Setup and Development
County-Level Estimates of Fertilizer Application in US
County-Level Estimates of Fertilizer Application in USA
Calculate Federal and State Income Taxes in the United States
Model-based clustering via mixtures of unrestricted skew-t
factor analyzer models
Model-Based Clustering via Mixtures of Unrestricted Skew-t
Sactor Analyzer Models
Analyze system scalability with the Universal Scalability Law
Analyze System Scalability with the Universal Scalability Law
Ussher Data Set Drawn from 1658 Chronology
Importing, Exporting and Converting Between Datasets and LaTeX
Tools for Building Tables for Publication
Tools for Summarizing Data for Publication
Construct, Evaluate and Plot Value and Utility Functions
P-Spline Regression for Utility Functions and Derived Measures
Annotate Variants in the Untranslated Regions
Tools for generating and handling of UUIDs
Tools for Generating and Handling of UUIDs
Descriptive Statistics, Inference, Regression, and Plotting in
an Introductory Statistics Course
Data Research, Access, Governance Network : Statistical
Disclosure Control
The Uniform Manifold Approximation and Projection (UMAP) Method
for Dimensionality Reduction
Sampling from von Mises-Fisher Distribution
Detect Small Changes in Process Mean using CUSUM Control Chart
by v-Mask
Vaccination Activities Coverage Estimation Model
Valence Aware Dictionary and sEntiment Reasoner (VADER)
Non-Domestic Vaccine Adverse Event Reporting System (VAERS)
Vaccine Data for Present
US Vaccine Adverse Event Reporting System (VAERS) Vaccine Data
for Present
Variational Approximations for Generalized Additive Models
Provide R Client to the Bank of Canada's Valet API
Interface to Bank of Canada's 'Valet' API
A Tidy Interface to the 'Valhalla' Routing Engine
Validation Tools for Artificial Neural Networks
One-Sided Multivariate Testing Procedures for Rating Systems
Validate Data in a Database using 'validate'
Checking and Simplifying Validation Rule Sets
External and Internal Validation Indices
Velocity and Accuracy of the LOg-RAnk TEst
Results from the Virginia Lottery Draw Games
Variable Selection with Mixture of Models
A Monte Carlo Valuation Framework for Variable Annuities
Factor Analysis Controlling the Effects of Response Bias
Identification and Statistical Analysis of Conserved Waters in
Proteins
Identification and Statistical Analysis of Conserved Waters Near
Proteins
A Vincent Van Gogh Color Palette Generator
Lightweight Access to the 'Geospatial Data Abstraction Library'
('GDAL')
Access to the 'Geospatial Data Abstraction Library' ('GDAL')
RF Variable Importance for Arbitrary Measures
Sequential Forward Floating Selection using Jeffries-Matusita
Distance
Variance Components Testing for Linear and Nonlinear Mixed
Effects Models
Variable Banding of Large Precision Matrices
Optimal Binning of Continuous and Categorical Variables
Variational inference for Bayesian variable selection
Large-Scale Bayesian Variable Selection Using Variational
Methods
VARCOMPCI: A Package for Computation of Confidence Intervals for
Variance Components of Mixed Models in R.
Variance Estimation for Sample Surveys by the Ultimate Cluster
Method
Variance estimation for sample surveys by the ultimate cluster
method
Variance estimation for surveys by the ultimate cluster method
Genetic Variability Analysis for Plant Breeding Research
A 'Sparklyr' Extension for 'VariantSpark'
Spatial Dependence Based on Empirical Variograms
Testing Spatial Dependence Using Empirical Variogram
Variant Calling in Targeted Analysis Sequencing Data
Estimations for the Covariance of Estimated Parameters in Joint
Mean-Covariance Models
Mixture model on the Variance for the analysis of gene expression data
Heuristics Tools Based on Mutual Information for Variable
Ranking
Searchable Variable Explorer with Labelled Variables
Transform Definition of Variables to R Scripts
Miscellaneous Functions for Vasicek Distribution
Regression Modeling Using Vasicek Distribution
Vault Client for Secrets and Sensitive Data
Variational Bayes Discrete Mixture Model
Variational Bayesian Multinomial Probit Regression
Variational Bayes Spike Regression Regularized Linear Models
Vine Copula Change Point Detection in Multivariate Time Series
Tools for Working with Variant Call Format ('VCF') Files
Variance-Covariance Matrices and Standard Errors
Tree-Based Varying Coefficient Regression for Generalized Linear
and Ordinal Mixed Models
Comparison of Variance - Covariance Patterns
Discriminant Analysis Incorporating Individual Uncertainties
Variance Dispersion Graphs and Fraction of Design Space Plots
Visual Regression Testing and Graphical Diffing
Perform Set Operations on Vectors, Automatically Generating All
n-Wise Comparisons, and Create Markdown Output
like base::sets tools but keeps duplicate elements.
Like base::sets Tools But Keeps Duplicate Elements
Like Set Tools in 'Base' Package but Keeps Duplicate Elements
Vector Wavelet Coherence for Multiple Time Series
Tools to Encode Visualizations with the 'Grammar of
Graphics'-Like 'Vega-Lite' 'Spec'
Static and dynamic 3D plots for vegan package
Static and Dynamic 3D Plots for the 'vegan' Package
Htmlwidget Renderer for Vega and Vega-Lite
Functions to use vegetation databases (Turboveg) for vegetation
analyses in R
Functions to access vegetation databases (Turboveg and VegetWeb)
and prepare data for analysis
Functions to access vegetation databases (Turboveg) and prepare
data for analysis
Functions to access vegetation databases (Turboveg) and prepare
vegetation data for analysis
Functions to access vegetation databases (Turboveg) and prepare
vegetation data especially its taxonomy for analysis
Access Vegetation Databases and Treat Taxonomy
Jost Diversity Measures for Community Data
Variable Selection for Heterogeneous Populations
Describe Pedigree Relationships in Words
Implementation of the 'Verhoeff' Check Digit Algorithm
Construction of test suites using verify objects
'Biomarker' Data Set by Vermeulen et al. (2009)
Query and Install Specific Versions of Packages on CRAN
Gradient and Vesselness Tools for Arrays and NIfTI Images
Version, Share, Deploy, and Monitor Models
Computation of v Values for U and Copula C(U, v)
Visual Field (VF) Progression Analysis and Plotting Methods
Variational Inference for Hierarchical Generalized Linear Models
Virus-Host Codon Usage Co-Adaptation Analysis
Vertical and Horizontal Inheritance Consistence Analysis
Interface to the 'VIAF' ('Virtual International Authority File')
API
Vaccine Induced Cellular Immunogenicity with Bivariate Modeling
A Shiny App to Visualize Genetic Maps and QTL Analysis in
Polyploid Species
Compute Viewshed in 3D Terrestrial Laser Scanner Scenes of
Ecosystems
Compute Viewshed in 3D Point Clouds of Ecosystems
State-Space Models Inference by Kalman or Viking
A Framework for Designing and Running Agent Based Models
Intermediate the communication between Vim and R
Perform Inference on Algorithm-Agnostic Variable Importance
Provides an Interface to the Department of Transportation VIN
Decoder
Multivariate Dependence Modeling with Vines
Combination of violin plot with mean and standard deviation.
Plotting and Comparing Means with Violin Plots
1-D Scatter Plots with Jitter Using Kernel Density Estimates
Plot Categorical Data Using Quasirandom Noise and Density
Estimates
Default Color Maps from 'matplotlib' (Lite Version)
Colorblind-Friendly Color Maps (Lite Version)
Virome Sequencing Analysis Result Browser
Generating Virtual Fundamental and Realised Niches
Simulating Pollen Curves from Virtual Taxa with Different Life
and Niche Traits
Generation of Virtual Species Distributions
Network Visualization using 'vis.js' Library
Clinical Graphs and Tables Adhering to Graphical Principles
Automated Visualization of Statistical Tests
Visualization of Subgroups for Decision Trees
Valid Improved Sparsity A-Learning for Optimal Treatment
Decision
Phase Portraits of Functions in the Complex Number Plane
Phase I Dose Escalation Study Design for Vaccines
Visualization of Analysis of Variance(VISOVA)
Interactive R Timelines using 'plotly.js'
Detecting Influence Paths with Information Theory
Generates a 3D Graphic, Plotting Stock Option Parameters Over
Time
Generates a 3D Visualization of Volatility Skew and Stock Option
Parameters Plotted Over Time
3D Visualization of Option Greeks and Volatility Skew
Package contains a few functions to visualize statistical
circumstances.
Graphs the pdf or pmf and highlights what area or probability is
present in defined locations.
Graph Probability Distributions with User Supplied Parameters
and Stats.
Graph Probability Distributions with User Supplied Parameters
and Statistics
Visualization 2D of Binary Classification Models
A Tool for the Visualization of Vowel Variation
Visible Vowels: Visualization of Vowel Variation
A Shiny App for Visual Exploration of Hierarchical Clustering
vitality: Fitting routines for the Vitality family of mortality
models
Fitting Routines for the Vitality Family of Mortality Models
Analyze and Visualize Data from 'Microsoft Viva Insights'
Variable Importance and Variable Interaction Displays
Local Variable Importance via Oscillations of Ceteris Paribus
Profiles
Visualize Draws from the Prior and Posterior Distributions
Variable Life Adjusted Display and Other Risk-Adjusted Quality
Control Charts
Visualization of Multidimensional Longitudinal Data
VMD Based Time Delay Neural Network Model
Quantify the Contractile Nature of Vessels Monitored under an
Operating Microscope
GUI Tools to Process, Analyze and Plot Fisheries Data
Variable Neighborhood Trust Region Search
Create and Manipulate Vocalisation Diagrams
Tools for Voice Analysis, Speaker Recognition and Mood Inference
High Volatility Environment Option Trading Strategies Graphs
Interactive Plotting of Three-Way Differential Expression
Analysis
3D Volcano Plots and Polar Plots for Three-Class Data
Volume Approximation and Sampling of Convex Polytopes
Detailed Statistics on Volleyball Matches
Modeling Species Distributions in Three Dimensions
Methods and applications related to Voronoi tessellations
Voronoi Treemaps with Added Interactivity by Shiny
Twitter Conversation Networks and Analysis
Collecting Social Media Data and Generating Networks for
Analysis
United States House and Senate Voting Cartogram Generators
Voting Systems, Instant-Runoff Voting, Borda Method, Various
Condorcet Methods
Vowel Manipulation, Normalization, and Plotting
Mass-Univariate Voxelwise Analysis of Medical Imaging Data
Processing and Visualization of Visual Plankton Recorder Data
Processing and Visualization of Video Plankton Recorder Data
Genome Scans to Accommodate and Target Genetic and Non-Genetic
Effects on Trait Variance
Genome Scans to Accommodate and Target Genetic and Non-Genetic
Effects on Trait Variance in Test Crosses
Change Point Estimation for Regression with Varying Segments and
Heteroscedastic Variances
Create plots, charts and graphs for 3D data visualization as
VRML files
Generate 3D visualizations for data exploration on the web
Read and Write Rectangular Text Data Quickly
Variance Ratio tests for Weak-form Market Efficiency
Variance Ratio tests and spectral shape tests for Weak-form Market Efficiency
Variance Ratio tests and spectral shape tests for Weak-form
Market Efficiency
Variance Ratio tests and other tests for Martigale Difference
Hypothesis
Variance Ratio tests and other tests for Martingale Difference
Hypothesis
Variance Ratio Tests and Other Tests for Martingale Difference
Hypothesis
Variable selection for clustering and classification
Variable Selection for Clustering and Classification
Graphical Shim for Visual Survival Data Analysis
Goodness-of-Fit Tests Based on Kullback-Leibler Divergence
Vintage Sparse PCA for Semi-Parametric Factor Analysis
Access to Visual Studio Team Services API via R
Variable Table for Variable Documentation
A Statistically Sound data.frame Processor/Conditioner
A Statistically Sound 'data.frame' Processor/Conditioner
Display Information About Nested Subsets of a Data Frame
Estimates the Variable Type in Error Afflicted Data
Visualization of Univariate Data for Comparison
Useful functions for visual word recognition research
Weighted Inbred Strain Association Mapping
Weighted Nearest Neighbor Imputation of Missing Values using
Selected Variables
Weighted SVM with boosting algorithm for improving accuracy
Computing Weighted Topological Overlaps (wTO) & Consensus wTO
Network
Colorblind-Friendly Palettes from Washington State
A package to simulate constrained phenotypes under a disease
model H1
Autocorrelation and Heteroskedasticity Correction in Fixed
Effect Panel Data Model
Read and Write 'wal' Bitmap Image Files and Other 'Quake' Assets
Interface to the 'Walkalytics' API for Calculating Walking
Isochrones
Efficient Bayesian Linear Regression with Time-Varying
Coefficients
Bayesian Regression with Time-Varying Coefficients
Bayesian Generalized Linear Models with Time-Varying
Coefficients
Random Walks the Intersection of the N-Simplex and Hyperplanes
Random Walks in the Intersection of Hyperplanes and the
N-Simplex
A Modular Platform for Reproducible Modeling of Species Niches
and Distributions
The Wally Calibration Plot for Risk Prediction Models
Retrieve 'Magic' Attributes from Files and Directories
Roster Generation of Turn for Weekdays:'warabandi'
Mixed Effects Modeling with Warping for Functional Data Using
B-Spline
Urban Water and Sanitation Survey Dataset
Visualisation and analysis of output files of the hydrological
model WASIM
Wasserstein Barycenters of Subset Posteriors
Actual Evapotranspiration with Energy Balance Models
An R Package for Retrieval, Analysis, and Anomaly Calculation of
Daily Hydrologic Time Series Data
Retrieval, Analysis, and Anomaly Calculation of Daily Hydrologic
Time Series Data
Sacramento and San Joaquin Valley Water Year Types
Create Waterfall Charts using 'ggplot2' Simply
Satellite Derived Water Quality Detection Algorithms
Fitting and Simulating Mixtures of Watson Distributions
Wavelet Scalogram Tools for Time Series Analysis
Computes credible intervals for Bayesian wavelet shrinkage
Computes Credible Intervals for Bayesian Wavelet Shrinkage
Time-frequency analysis of cycling cell luminescence data
Waveform LiDAR Data Processing and Analysis
Wave Function Representation of Real Distributions
A package of funtions for computing wavelet filters, wavelet
transforms and multiresolution analyses
A package of functions for computing wavelet filters, wavelet
transforms and multiresolution analyses
Functions for Computing Wavelet Filters, Wavelet Transforms and
Multiresolution Analyses
Wavelet routine for multiple correlation
Wavelet Routines for Global and Local Multiple Correlation
Wavelet Routines for Global and Local Multiple Regression and
Correlation
Basic wavelet routines for time series analysis
Basic wavelet routines for time series and image analysis
Basic wavelet routines for one-, two- and three-dimensional signal
processing
Basic wavelet routines for one-, two- and three-dimensional
signal processing
Basic Wavelet Routines for One-, Two- And Three-Dimensional
Signal Processing
Basic Wavelet Routines for One-, Two-, and Three-Dimensional
Signal Processing
Software to perform wavelet statistics and transforms.
Rock Solid Package Installation for Legacy R Versions
Computation of Approximate Potentials for Weakly Non-Gradient
Fields
Yardstick Extensions for Measuring Spatial Structure in Model
Residuals
Wild Binary Segmentation for multiple change-point detection
Wild Binary Segmentation for Multiple Change-Point Detection
Programmatic Access to Data and Statistics from the World Bank
API
Multiple Change-Point Detection for Nonstationary Time Series
SOM networks for comparing patterns with peak shifts
SOM Networks for Comparing Patterns with Peak Shifts
Download Data from the Wittgenstein Human Capital Data Explorer
Download Data from the Wittgenstein Centre Human Capital Data
Explorer
Survival Analysis for Weighted Composite Endpoints
Pull Spatial Layers from 'WDNR ArcGIS REST API'
Interface to the World Database on Protected Areas
Tools for the Analysis of Weak ARMA Models
Tools to Read and Convert Wearables Data
Download Weather Data from the Environment and Climate Change
Canada Website
Download Weather Data from Environment and Climate Change Canada
Functions to convert between weather metrics
Functions to Convert Between Weather Metrics
Tools for Handling and Scrapping Instant Weather Forecast Feeds
Tools for Handling and Scraping Instant Weather Forecast Feeds
Including Known Interactions in Species Distribution Models
A Wrapper Around 'WebTRIS' Traffic Flow API from Highways
England
Interact with Online Differential Diagnosis-Generating Tools
Create Interactive Web Exercises in 'R Markdown'
Create Interactive Web Exercises in 'R Markdown' (Formerly
'webex')
Stubbing and Setting Expectations on 'HTTP' Requests
A New Format for Lossless and Lossy Image Compression
Data and Functions for Web-Based Analysis
Tools for Reading Formatted Access Log Files
Access Domains and Search Popular Websites
Various Useful Web Tools (Including Full CRAN Dataset Search and
Fetch)
Utility Functions for Developing Web Applications
Western Electric Company Rules (WECO) for Shewhart Control Chart
Functions to Access Women's Basketball Play by Play Data
Access Women's Basketball Play by Play Data
Fits Data into 4-Parameters Weibull Distribution
Goodness-of-Fit Test for Weibull (Weibullness Test)
Goodness-of-Fit Test for Weibull Distribution (Weibullness)
Statistical Methods for Life Data Analysis
Weights for Incomplete Longitudinal Data and Quantile Regression
Efficient and Feasible Inference for High-Dimensional Normal
Copula Regression Models
Weighted Generalised Covariance Measure Conditional Independence
Test
Sensitivity Analysis Using Weighted Rank Statistics
Weighted Scores Method for Regression Models with Dependent Data
Weighted scores method for regression with dependent data
Estimating Weight-Function Models for Publication Bias in R
Estimating Weight-Function Models for Publication Bias
A Hydraulics Package to Compute Open-Channel Flow over Weirs
Welch-James Statistic for Robust Hypothesis Testing under
Heterocedasticity and Non-Normality
An R client for interacting with the White House's "We The
People" petition API.
Quantifying Performance of a Binary Classifier Through Weight of
Evidence
Weighted Linear Fixed Effects Estimators for Causal Inference
Weighted Linear Fixed Effects Regression Models for Causal
Inference
Data Set and Helper Functions for Wind Farm Layout Optimization
Problems
Whole Genome Average Interval Mapping for QTL detection using mixed models
Whole Genome Average Interval Mapping for QTL detection using
mixed models
Whole Genome Average Interval Mapping for QTL Detection using
Mixed Models
Whole Genome Average Interval Mapping for QTL Detection and
Estimation using ASReml-R
Weighted Generalized Estimating Equations and Model Selection
Wilcoxon based gene set enrichment analysis
Incrementally Build Complex Plots using Natural Semantics
Reliably Return the Source and Call Location of a Command
Tools for Manipulating Gas Exchange Data
{{mustache}} for R, logicless templating
{{mustache}} for R, Logicless Templating
Advanced Policing Techniques for the Board Game "Letters from
Whitechapel"
Whitening and High-Dimensional Canonical Correlation Analysis
White Test and Bootstrapped White Test for Heteroskedasticity
Evaluation of Genotyping Error in Genotype-by-Sequencing Data
Username, Full Name, Email Address, 'GitHub' Username of the
Current User
Calculate Results from WHO Model Disability Survey Data
Weighting by Inverse Distance with Adaptive Least Squares for
Massive Space-Time Data
Weighting by Inverse Distance with Adaptive Least Squares
Penalized Regression with Polynomial Basis Expansions
Access Databases from the Federal Statistical Office of Germany
Functions and datasets of the german WikiBook "GNU R"
Functions and Datasets of the German WikiBook "GNU R"
Generates Messages with Facts Sourced from the Wikipedia Main
Page
Generates Facts Sourced from the Wikipedia Main Page
Get Facts and Data from Wikipedia and Wikidata
Scrape Lakes Metadata Tables from Wikipedia
Scrape Lake Metadata Tables from Wikipedia
Public Subject Attention via Wikipedia Page Access Statistics
Public Subject Attention via Wikipedia Page View Statistics
Download Public Domain Works from Wikisource
Computes Values for the 1-Sample Wilcoxon Sign Rank Test for
Medians
R Tools for Wildlife Research and Management
Calculate Indices of Dynamic Interaction for Wildlife Telemetry
Data
Calculate Indices of Dynamic Interaction for Wildlife Tracking
Data
Cluster Wild Bootstrapping for Meta-Analysis
Best Hand Analysis for Poker Variants Including Wildcards
Compiles and Visualizes Wildfire, Climate, and Air Quality Data
Estimates the Win-Ratio as a Function of Time
windex: Analysing convergent evolution using the Wheatsheaf
index
Analysing Convergent Evolution using the Wheatsheaf Index
Genetic Algorithm for Wind Farm Layout Optimization
Interact with Peak Flow Data in the United Kingdom
Quick and Dirty Estimates for Wildlife Populations
A Shiny Application for End-to-End Bayesian Decision Network
Analysis and Web-Deployment
Multi-Threaded, Coercion-Free Implementations of Common Row-Wise
Operations
Run Code 'With' Temporarily Modified Global State
This package fits eyewitness data using Clark's (2003) WITNESS
model
A Mutual Information-Weighted k-NN Imputation Algorithm
Convert Between Spatial Objects and Well-Known Binary (WKB)
Geometry
Convert Between Spatial Objects and Well-Known Binary Geometry
Utilities for Well-Known Geometry Vectors
Wavelet Leaders in Multifractal Analysis
Insightful Wavelet Methods for Time Series Analysis
Wavelet Methods for Time Series Analysis
Power Calculations for Two-Sample Wilcoxon-Mann-Whitney Test
Exact Power of the Wilcoxon-Mann-Whitney Rank-Sum Test for a
Continuous Variable
Precise and Accurate Power of the Wilcoxon-Mann-Whitney Rank-Sum
Test for a Continuous Variable
Minimization Tool for Pharmacokinetic-Pharmacodynamic Data
Analysis
Computes Weight of Evidence and Information Values
Supervised WOE Binning of Numeric Variables and Factors
Supervised Weight of Evidence Binning of Numeric Variables and
Factors
Weight of Evidence Based Segmentation of a Variable
Spatiotemporal Boundary Detection Model for Areal Unit Data
105 Data Sets from "Introductory Econometrics: A Modern
Approach" by Jeffrey M. Wooldridge
111 Data Sets from "Introductory Econometrics: A Modern
Approach, 6e" by Jeffrey M. Wooldridge
115 Data Sets from "Introductory Econometrics: A Modern
Approach, 7e" by Jeffrey M. Wooldridge
Workflow for Open Reproducible Code in Science
Computing Word Alignment Using IBM Model 1 (and Symmetrization)
for a Given Parallel Corpus and Evaluation
Computing Word Alignment Using IBM Model 1 (and Symmetrization)
for a Given Parallel Corpus and Its Evaluation
Graph Functionality of Free Associated Words
Matches words in one file with words in another file
R Implementation of Wordpiece Tokenization
Develop Text Prediction Models Based on N-Grams
List of English Words from the Scrabble Dictionary
Provide Tools to Extract and Analyze Word Vectors
Generate Bootstrap Prediction Intervals from a 'tidymodels'
Workflow
A Framework for Reproducible and Collaborative Data Science
Create a Collection of 'tidymodels' Workflows
Analysis of Work Loops and Other Data from Muscle Physiology
Experiments
Functions to Extract and Clean World Football (Soccer) Data
Extract and Clean World Football (Soccer) Data
Import Surface Meteorological Data from NOAA Integrated Surface
Database (ISD)
Retriving Aphia Information from World Register of Marine
Species
World Register of Marine Species (WoRMS) Client
Generate Wordsearch and Crossword Puzzles
Clients to the 'Web of Science' and 'InCites' APIs
Tools for Analysing and Visualising Workplace Analytics Data
Tools for Analysing and Visualising Viva Insights Data
Graphics in the Context of Analyzing High-Throughput Data
Analyze Experimental High-Throughput (Omics) Data
Internal Fragment Identification from Top-Down Mass Spectrometry
Useful Wrappers Around Commonly Used Functions
Wrap R Functions for Debugging and Ease of Use
Wrap R Functions for Debugging and Parametric Programming
Wrap R Tools for Debugging and Parametric Programming
Function for exporting data to SNNS pattern files.
Export Data Frames to Excel 'xlsx' Format
Functions for working with Worldwide Reference System (WRS)
Weighted Random Sampling without Replacement
Benchmark and Correctness Data for Weighted Random Sampling
Without Replacement
Who Are You? Bayesian Prediction of Racial Category Using
Surname and Geolocation
Who are You? Bayesian Prediction of Racial Category Using
Surname and Geolocation
Who are You? Bayesian Prediction of Racial Category Using
Surname, First Name, Middle Name, and Geolocation
Weighted Smooth Backfitting for Structured Models
Style Time Series Plots Like the Wall Street Journal
Weighted Selection Probability for Rare Variant Analysis
Weighted Subspace Random Forest for Classification
Wavelet Approaches to Studies of Synchrony in Ecology and Other
Fields
A proportional hazards regression model for the subdistribution
with covariates adjusted censoring weight for competing risks
data
Competing risks regression models with covariate-adjusted
censoring weight
Competing Risks Regression Models with Covariate-Adjusted
Censoring Weights
The W-Test on Genetic Interactions Testing
The W-Test for Genetic Interactions Testing
An R Client for a Web Time-Series Service
Wegener Center Climate Uncertainty Explorer
Image Tools for Automated Wood Identification
Hypothesis Tests for Functional Time Series
Wizardry Code Offensive Programming R Documentation
Wizardry Code Offensive Programming Test Generation
X12 - wrapper function and structure for batch processing
x12 - wrapper function and structure for batch processing
Interface to 'X12-ARIMA'/'X13-ARIMA-SEATS' and Structure for
Batch Processing of Seasonal Adjustment
Interface to X12-ARIMA/X13-ARIMA-SEATS and Structure for Batch
Processing of Seasonal Adjustment
Provide the 'x13ashtml' Seasonal Adjustment Binary
Tools for Working with 3D Surface Measurements
An R Package for Integrative Analysis of Quantitative Trait
Locus Data of 'GTEx'
Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'
Delinate Region of Interests (ROI's) and Extract Time-Series
Data from Digital Repeat Photography Images
Delineate Region of Interests (ROI's) and Extract Time-Series
Data from Digital Repeat Photography Images
Visualization and Correction of X-Ray Micro-Density Profiles
Identify and Measure Tree Rings on X-Ray Micro-Density Profiles
Cross-National Data on Sub-National Violence
Calculates Credit Risk Valuation Adjustments
Subsetting and Plotting Optimized for Admixture Data
Extras and Extensions for 'xaringan' Slides
Genomic Simulation of Purebred and Crossbred Populations
Estimating a (c)DCC-GARCH Model in Large Dimensions
Extensions for Exponential Random Graph Models (ERGM)
Extensions of Exponential Random Graph Models
Common Infrastructure for Extensions of Exponential Random Graph
Models
Miscellaneous Functions to Support Packages Maintained by 'Yihui
Xie'
Supporting Functions for Packages Maintained by 'Yihui Xie'
Convert Trained 'XGBoost' Model to SQL Query
Interface to the XGobi and XGvis programs for graphical data analysis
Interface to the XGobi and XGvis programs for graphical data
analysis
Excess Hazard Modelling Considering Inappropriate Mortality
Rates
Plotting ggplot2 graphics in a XKCD style
Plotting ggplot2 graphics in an XKCD style
Plotting ggplot2 Graphics in an XKCD Style
Genetic Association Models for X-Chromosome SNPS on Continuous,
Binary and Survival Outcomes
Read, write, format Excel 2007 (xlsx) files
Read, write, format Excel 2007 and Excel 97/2000/XP/2003 files
Read, Write, Format Excel 2007 and Excel 97/2000/XP/2003 Files
Read and Write 'Excel' Sheets into and from List of Data Frames
Package required jars for the xlsx package
Package required POI jars for the xlsx package
Automatically Write Beautifully Formatted Cross
Tabulations/Contingency Tables to Excel
A Toolbox for Multivariate Meta-Analysis
A Tool Box for Multivariate Meta-Analysis
Converting XML Documents into Relational Data Models
Comfortably Converting XML Documents to Dataframes and Vice
Versa
Implementation of the Remote Procedure Call Protocol ('XML-RPC')
Generate XMR Control Chart Data from Time-Series Data
Two-Step Kernel Ridge Regression for Network Predictions
Tools for analyzing crossover interference
Tools for Analyzing Crossover Interference
Generates Expectations for 'testthat' Unit Testing
Providing Interactive Interpretations and Explanations of
Statistical Results
Utilities to Output CDISC SDTM/ADaM XPT Files
Graphical Diagnostics for Pharmacometric Models: Extension to
'nlmixr'
Graphical Diagnostics for Pharmacometric Models: Extension to
'nlmixr2'
Tools for Nonlinear Mixed-Effect Model Building and Diagnostics
Diagnostics for Nonlinear Mixed-Effect Models
Assessing Functional Impact on Gene Expression of Mutations in
Cancer
Assisted Model Building, using Surrogate Black-Box Models to
Train Interpretable Spline Based Additive Models
Basic text formatting using xterm escape sequences
Terminal Text Formatting Using Escape Sequences
Accessing Environmental Data from ERD's ERDDAP Server
Feasible Estimation of the Two-Way Fixed Effect Model
Regularized Regression with Differential Penalties Integrating
External Information
Practical Item Response Theory and Computer-Based Testing in R
Item Response Theory and Computer-Based Testing in R
A Method for Creating Xylophone-Like Frequency Density Plots
The 'xyz' Algorithm for Fast Interaction Search in
High-Dimensional Data
Performs popular nearest neighbor routines
yaImpute: An R Package for k-NN Imputation
Nearest Neighbor Observation Imputation and Evaluation Tools
Yet Another Canonical Correlation Analysis Package
Yet Another General Regression Neural Network
A Simple Wrapper for the k-Means Library Yakmo
Methods to convert R data to YAML and back
Methods to Convert R Data to YAML and Back
Writing 'YAML' Headers for 'R-Markdown' Documents
Yet Another Probabilistic Neural Network
Track Estimation using YAPS (Yet Another Positioning Solver)
Tidy Characterizations of Model Performance
A Companion to the e-Book YaRrr!: The Pirate's Guide to R
A Companion to the e-Book "YaRrr!: The Pirate's Guide to R"
String Functions for Compact and Expressive Code
Nonparametric Estimation of the Yield Curve Evolution
Yield curve or zero-coupon prices interpolation and
extrapolation
Use and if Needed Install Packages from CRAN, BioConductor, CRAN
Archive, and GitHub
Downloads and Organizes Financial Data from Yahoo Finance
Compute Expected Years of Life Lost (YLL) and Average YLL
Parse 'YMD' Format Number or String to Date
Write 'YAML' for 'R Markdown', 'bookdown', 'blogdown', and More
A Reactive Web Framework Built on 'shiny'
Analyze Cricket Performances Based on Data from Cricsheet
An Advanced Guide to Trade Policy Analysis
Downloading YouTube Subtitle Transcription in a Tidy 'Tibble'
Data_Frame
Downloading YouTube Subtitle Transcription in a Tidy Tibble
Data_Frame
Downloading YouTube Subtitle Transcription in a Tidy Tibble Data
Frame
Longitudinal Wages Data from the National Longitudinal Survey of
Youth 1979
A Graphical User Interface for the 'yuima' Package
Supporting Functions for Packages Maintained by 'YuLab-SMU'
Utilities to Extract and Process 'YAML' Fragments
Replacement of zeros and nondetects in compositional data sets
Imputation of Zeros and Nondetects in Compositional Data Sets
Treatment of Zeros, Left-Censored and Missing Values in
Compositional Data Sets
Treatment of Zeros and Nondetects in Compositional Data Sets
Calculate the Compressibility Factor 'z' for Hydrocarbon Gases
Zero Inflated Gamma Poisson Shrinker with Adverse Event Ontology
Functions to Import Data from 'z-Tree' into R
Multiple and Unpacking Variable Assignment
Multiple, Unpacking, and Destructuring Assignment
Easily Install and Load Stable Zelig Packages
Zero Order vs (Semi) Partial Correlation Test and CI
An Implementation for the Gravitational Models of Trade
Functions to Compute Compositional Turnover Using Zeta Diversity
Bayesian Inference for Zero-Inflated Count Models
Counts data models: zero-inflation as well as interval icensored
Data & Functions for Working with US ZIP Codes
Statistical models for word frequency distributions
Statistical Models for Word Frequency Distributions
Zero-Inflated Poisson Hidden (Semi-)Markov Models
Small Area Estimation with Zero-Inflated Model
Z(log) Transformation for Laboratory Measurements
Seismic Reflection and Scattering Coefficients
Bayesian Inference for Zero/One Inflated Beta Regression
Bayesian Inference for Beta Regression and Zero/One Inflated
Beta Regression
Bayesian Inference for Beta Regression and Zero-or-One Inflated
Beta Regression
Bayesian Zero-and-One Inflated Dirichlet Regression Modelling
Interface to the 'Zoltar' Forecast Repository API
Utilities for Zonation Spatial Conservation Prioritization
Software
Create and Explore Geographic Zoning Systems
S3 Infrastructure for Regular and Irregular Time Series (Z's
ordered observations)
S3 Infrastructure for Regular and Irregular Time Series (Z's
Ordered Observations)
Analytical Tools for Zooarchaeological Data
Interactive Analytical Tools for Zooarchaeological Data
Analysis of numerical zooplankton images
Analyze Text, Audio, and Video from 'Zoom' Meetings
Reproducible, Accessible & Shareable Species Distribution
Modelling
R Bindings to Zstandard Compression Library
R Bindings to the 'Zstandard' Compression Library
Zebra-Striped Tables in LaTeX and HTML Formats
Run a Ztype Game Loaded with R Functions
Lite Wrapper for the 'Zamzar File Conversion' API
The R Graphics Devices and Support for Colours and Fonts
Bioconductor annotation data package builder
Biobase: Base functions for Bioconductor
String objects reepresenting biological sequences
Multimodal visualization of gene expression
Differential Expression via Distance Summary for Microarray Data
Tools for manipulating GO and microarrays.
Heterogeneous error model for analysis of microarray data
Methods for analyzing microarray data using Local Pooled Error (LPE) method
Measurement Error model estimate for correlation coefficient
Optimized local intensity-dependent normalisation of two-color microarrays
interface to chip.org::SNPper for SNP-related data
Reads annotation data from TIGR Resourcerer or convert the
annotation data into Bioconductor data pacakge.
Ruuid: Provides Universally Unique ID values
A package that deals with SAGE libraries
Classes and functions for Array Comparative Genomic Hybridization data.
Methods for Affymetrix Oligonucleotide Arrays
Graphics Toolbox for Assessment of Affymetrix Expression Measures
Affymetrix Data for Demonstration Purpose
GUI for affy analysis using limma package
Probe Dependent Nearest Neighbours (PDNN) for the affy package
Annotation tools for Affymetrix biological metadata
Estimate protein complex membership using AP-MS protein data
two-colour cDNA array quality control and preprocessing
Assessing array quality on spotted arrays
Efficient design and analysis of factorial two-colour microarray data
Implementation of exprSet using externalVectors
Vector objects for R with external storage
Factorial designed microarray experiment analysis
Background Adjustment Using Sequence Information
Grapics related functions for Bioconductor
Testing Association of a Group of Genes with a Clinical Variable
Analysis of clustering results in conjunction with annotation data.
Hexagonal Binning Routines ___OLD VERSION___
Exploratory analysis for two-color spotted microarray data
Tools for sequence matching of probes on arrays
Basic classes and methods for mass spectrometric mass list manipulation.
Spatial and intensity based normalization of cDNA microarray data based on robust neural nets
pairwise sequence alignment similarity simple.
Adaptive Gene Picking for Microarray Expression Data Analysis
SAM and Efron's empirical Bayes approaches
Very simple high level analysis of Affymetrix data
Stepwise normalization functions for cDNA microarrays
Estimation of local false discovery rate
Variance stabilization and calibration for microarray data
Different test statistics based on co-citation.
MetaAnalysis for High Throughput Experiments
Misclassification error estimation with cross-validation
MiPP (Misclassification Penalized Posterior)-based Classification
Rank Product method for identifying differentially expressed genes.
Interface to BioMart databases (e.g. Ensembl)
Bayesian Robust Inference for Differential Gene Expression
A gene recommender algorithm to identify genes coexpressed with a query set of genes
Structuring and Plotting GFF3 Data Files
A package providing hypergraph data structures
Micro array database and utility functions for micro array analysis.
Multivariate analysis of microarray data using ADE4
Calibration and filtering of mass spectrometric peak(mass) lists.
graphs and sparse matrices for working with ontologies; formal
objects for nomenclatures with provenance management
Utility functions for PostgreSQL databases
Implements the Affymetrix PLIER algorithm
Data analysis for cell-based functional assays
Minimal Data Library for RFlowCyt examples
Statistical tools and data structures for analytic flow cytometry
Significance Analysis of Function and Expression
Collection of functions for reading and comparing SAGE libraries
Microarray Spot Segmentation and
Gridding for Blocks of Microarray Spots
Multimodal visualization of gene expression data
Differential Expression via Distance Summary for Microarray
Data
Calculates a global test for differential gene expression
between groups
Heterogeneous error model for identification of differentially expressed genes under multiple conditions
Uniform interfaces to R machine learning procedures for data in Bioconductor containers
Rank Product method for identifying differentially expressed
genes.
Classes and functions for Array Comparative Genomic
Hybridization data.
QC Report Generation for affyBatch objects
Graphics Toolbox for Assessment of Affymetrix Expression
Measures
Compute cluster stability scores for microarray data
Efficient design and analysis of factorial two-colour
microarray data
Performs differential gene expression Analysis
FDR adjustments of Microarray Experiments (FDR-AME)
A gene recommender algorithm to identify genes coexpressed with
a query set of genes
Plotting Data of Experiments on the Genomic Layout
Analysis of clustering results in conjunction with annotation
data.
Microarray database and utility functions the for microarray
analysis.
Significant Gene Expression Profile Differeneces in Time Course Microarray Data
multi-chip modified gamma Model of Oligonucleotide Signal
Basic classes and methods for mass spectrometric mass list
manipulation.
Spatial and intensity based normalization of cDNA microarray
data based on robust neural nets
Classification of Microarray Samples using Penalized Discriminant Methods
Statistical tools and data structures for analytic flow
cytometry
Collection of functions for reading and comparing SAGE
libraries
Computationally simulates the AP-MS technology.
Statistical Analysis for Developmental Microarray Time Course Data
String objects representing biological sequences, and matching algorithms
Caenorhabditis elegans genome (UCSC Release ce2)
Drosophila melanogaster genome (UCSC Release dm2)
Get data from NCBI Gene Expression Omnibus (GEO)
A data package containing annotation data for GO
Base functions for genome data package manipulation
A heat map displaying covariates and coloring clusters
exprSets for Iyer, Eisen et all 1999 Science paper
A data package containing annotation data for KEGG
Soft clustering of time series gene expression data
Mus musculus (mouse) genome (UCSC Release mm7)
Operating characteristics plus sample size and local fdr for microarray experiments
A data package containing annotation data for PFAM
Rank Product method for identifying differentially expressed
genes with application in meta-analysis
Saccharomyces cerevisiae (yeast) genome (UCSC Release sacCer1)
A data package containing annotation data for YEAST
Functions useful for those doing repetitive analyses
with Affymetrix GeneChips.
Affymetrix Arabidopsis Genome Array Annotation Data (ag)
A data package containing annotation data for agahomology
Probe sequence data for microarrays of type ag
Probe sequence data for microarrays of type atgenomeatrefseq7
Probe sequence data for microarrays of type atgenomeattigr7
Affymetrix Arabidopsis ATH1 Genome Array Annotation Data (ath1121501)
Probe sequence data for microarrays of type ath1121501
Probe sequence data for microarrays of type ath1atrefseq7
Probe sequence data for microarrays of type ath1attigr7
A data package containing annotation data for athhomology
Probe sequence data for microarrays of type barley1
Quality control and low-level analysis of BeadArrays
Categorized views of R package repositories
Probe sequence data for microarrays of type bovine
Probe sequence data for microarrays of type bsubtilis
A data package containing annotation data for btahomology
A data package containing annotation data for cMAP
Probe sequence data for microarrays of type canine2
Probe sequence data for microarrays of type canine
Affymetrix C. elegans Genome Array Annotation Data (celegans)
Probe sequence data for microarrays of type celegans
A data package containing annotation data for celhomology
A data package containing annotation data for cfahomology
Probe sequence data for microarrays of type cfcanine2cfense7
Probe sequence data for microarrays of type cfcanine2cfensg7
Probe sequence data for microarrays of type cfcanine2cfenst7
Probe sequence data for microarrays of type cfcanine2cfentrezg7
Probe sequence data for microarrays of type cfcanine2cfrefseq7
Probe sequence data for microarrays of type cfcanine2cfug7
Find chromosome regions showing common gains/losses
Probe sequence data for microarrays of type chicken
A data package containing annotation data for cinhomology
Manipulation of Codelink Bioarrays data.
exprSet for Alon et al. (1999) colon cancer data
Functions to perform cancer outlier profile analysis.
Data and analysis scripts for David, Huber et al. yeast tiling array paper
Probe sequence data for microarrays of type dmdrosophila2dmense7
Probe sequence data for microarrays of type dmdrosophila2dmensg7
Probe sequence data for microarrays of type dmdrosophila2dmenst7
Probe sequence data for microarrays of type dmdrosophila2dmrefseq7
Probe sequence data for microarrays of type dmdrosophila2dmug7
A data package containing annotation data for dmehomology
Probe sequence data for microarrays of type dmgenome1dmense7
Probe sequence data for microarrays of type dmgenome1dmensg7
Probe sequence data for microarrays of type dmgenome1dmenst7
Probe sequence data for microarrays of type dmgenome1dmrefseq7
Probe sequence data for microarrays of type dmgenome1dmug7
A data package containing annotation data for drehomology
Affymetrix Drosophila Genome Array Annotation Data (drosgenome1)
Probe sequence data for microarrays of type drosgenome1
Affymetrix Drosophila Genome 2.0 Array Annotation Data (drosophila2)
Probe sequence data for microarrays of type drosophila2
Probe sequence data for microarrays of type drzebrafishdrense7
Probe sequence data for microarrays of type drzebrafishdrensg7
Probe sequence data for microarrays of type drzebrafishdrenst7
Probe sequence data for microarrays of type drzebrafishdrentrezg7
Probe sequence data for microarrays of type drzebrafishdrrefseq7
Probe sequence data for microarrays of type drzebrafishdrug7
Probe sequence data for microarrays of type ecoli2
Experimental data with Affymetrix E. coli chips
Probe sequence data for microarrays of type ecoliasv2
Probe sequence data for microarrays of type ecoli
A data package containing annotation data for egohomology
2x2 factorial design exercise for the Bioconductor short course
Saghatelian et al. (2004) FAAH knockout LC/MS data
exprSet for Karaman et al. (2003) fibroblasts data
A data package containing annotation data for ggahomology
Probe sequence data for microarrays of type ggchickenggense7
Probe sequence data for microarrays of type ggchickenggensg7
Probe sequence data for microarrays of type ggchickenggenst7
Probe sequence data for microarrays of type ggchickenggrefseq7
Probe sequence data for microarrays of type ggchickenggug7
Testing Association of Groups of Genes with a Clinical Variable
A data package containing annotation data for gmahomology
CodeLink UniSet Human I Bioarray (~10 000 human genes) Annotation Data
CodeLink UniSet Human 20k I Bioarray Annotation Data
Affymetrix Human Cancer G110 Array Annotation Data (hcg110)
Probe sequence data for microarrays of type hcg110
Affymetrix Human Genome Focus Array Annotation Data (hgfocus)
Probe sequence data for microarrays of type hgfocus
Affymetrix Human Genome U133A 2.0 Array Annotation Data (hgu133a2)
Probe sequence data for microarrays of type hgu133a2
Affymetrix Human Genome U133 Set Annotation Data (hgu133a)
Probe sequence data for microarrays of type hgu133a
Probe sequence data for microarrays of type hgu133atag
Affymetrix Human Genome U133 Set Annotation Data (hgu133b)
Probe sequence data for microarrays of type hgu133b
Affymetrix Human Genome U133 Plus 2.0 Array Annotation Data (hgu133plus2)
Probe sequence data for microarrays of type hgu133plus2
Affymetrix Human Genome U95 Set Annotation Data (hgu95a)
Probe sequence data for microarrays of type hgu95a
Affymetrix Human Genome U95 Set Annotation Data (hgu95av2)
Probe sequence data for microarrays of type hgu95av2
Affymetrix Human Genome U95 Set Annotation Data (hgu95b)
Probe sequence data for microarrays of type hgu95b
Affymetrix Human Genome U95 Set Annotation Data (hgu95c)
Probe sequence data for microarrays of type hgu95c
Affymetrix Human Genome U95 Set Annotation Data (hgu95d)
Probe sequence data for microarrays of type hgu95d
Affymetrix Human Genome U95 Set Annotation Data (hgu95e)
Probe sequence data for microarrays of type hgu95e
A data package containing annotation data for hguDKFZ31
Clontech BD Atlas Long Oligos Human 13K Annotation Data (hguatlas13k)
A data package containing annotation data for hgubeta7
Agilent Human 1 cDNA Microarray Kit Annotation Data (hgug4100a)
Agilent Human 2 cDNA Microarry Kit Annotation Data (hgug4101a)
Agilent Human 1A (V2) Annotation Data (hgug4110b)
Agilent Human 1B Annotation Data (hgug4111a)
Agilent Human Genome,  Whole Annotation Data (hgug4112a)
Qiagen Qiagen V3.0 oligo set Annotation Data (hguqiagenv3)
Probe sequence data for microarrays of type hs133ahsense7
Probe sequence data for microarrays of type hs133ahsensg7
Probe sequence data for microarrays of type hs133ahsenst7
Probe sequence data for microarrays of type hs133ahsentrezg7
Probe sequence data for microarrays of type hs133ahsrefseq7
Probe sequence data for microarrays of type hs133ahsug7
Probe sequence data for microarrays of type hs133aptense7
Probe sequence data for microarrays of type hs133aptensg7
Probe sequence data for microarrays of type hs133av2hsense7
Probe sequence data for microarrays of type hs133av2hsensg7
Probe sequence data for microarrays of type hs133av2hsenst7
Probe sequence data for microarrays of type hs133av2hsentrezg7
Probe sequence data for microarrays of type hs133av2hsrefseq7
Probe sequence data for microarrays of type hs133av2hsug7
Probe sequence data for microarrays of type hs133av2ptense7
Probe sequence data for microarrays of type hs133av2ptensg7
Probe sequence data for microarrays of type hs133bhsense7
Probe sequence data for microarrays of type hs133bhsensg7
Probe sequence data for microarrays of type hs133bhsenst7
Probe sequence data for microarrays of type hs133bhsentrezg7
Probe sequence data for microarrays of type hs133bhsrefseq7
Probe sequence data for microarrays of type hs133bhsug7
Probe sequence data for microarrays of type hs133bptense7
Probe sequence data for microarrays of type hs133bptensg7
Probe sequence data for microarrays of type hs133phsense7
Probe sequence data for microarrays of type hs133phsensg7
Probe sequence data for microarrays of type hs133phsenst7
Probe sequence data for microarrays of type hs133phsentrezg7
Probe sequence data for microarrays of type hs133phsrefseq7
Probe sequence data for microarrays of type hs133phsug7
Probe sequence data for microarrays of type hs133pptense7
Probe sequence data for microarrays of type hs133pptensg7
Probe sequence data for microarrays of type hs133xhsense7
Probe sequence data for microarrays of type hs133xhsensg7
Probe sequence data for microarrays of type hs133xhsenst7
Probe sequence data for microarrays of type hs133xhsentrezg7
Probe sequence data for microarrays of type hs133xhsrefseq7
Probe sequence data for microarrays of type hs133xhsug7
Probe sequence data for microarrays of type hs133xptense7
Probe sequence data for microarrays of type hs133xptensg7
Probe sequence data for microarrays of type hs95av2hsense7
Probe sequence data for microarrays of type hs95av2hsensg7
Probe sequence data for microarrays of type hs95av2hsenst7
Probe sequence data for microarrays of type hs95av2hsentrezg7
Probe sequence data for microarrays of type hs95av2hsrefseq7
Probe sequence data for microarrays of type hs95av2hsug7
Probe sequence data for microarrays of type hs95av2ptense7
Probe sequence data for microarrays of type hs95av2ptensg7
A data package containing annotation data for hsahomology
Probe sequence data for microarrays of type hsex10stv2hsense7
Probe sequence data for microarrays of type hsex10stv2hsensg7
Probe sequence data for microarrays of type hsex10stv2hsenst7
Probe sequence data for microarrays of type hsex10stv2hsentrezg7
Probe sequence data for microarrays of type hsex10stv2hsrefseq7
Probe sequence data for microarrays of type hsex10stv2hsug7
Probe sequence data for microarrays of type hsex10stv2ptense7
Probe sequence data for microarrays of type hsex10stv2ptensg7
Probe sequence data for microarrays of type hsfocushsense7
Probe sequence data for microarrays of type hsfocushsensg7
Probe sequence data for microarrays of type hsfocushsenst7
Probe sequence data for microarrays of type hsfocushsentrezg7
Probe sequence data for microarrays of type hsfocushsrefseq7
Probe sequence data for microarrays of type hsfocushsug7
Probe sequence data for microarrays of type hsfocusptense7
Probe sequence data for microarrays of type hsfocusptensg7
Affymetrix Human Genome HU35K Set Annotation Data (hu35ksuba)
Probe sequence data for microarrays of type hu35ksuba
Affymetrix Human Genome HU35K Set Annotation Data (hu35ksubb)
Probe sequence data for microarrays of type hu35ksubb
Affymetrix Human Genome HU35K Set Annotation Data (hu35ksubc)
Probe sequence data for microarrays of type hu35ksubc
Affymetrix Human Genome HU35K Set Annotation Data (hu35ksubd)
Probe sequence data for microarrays of type hu35ksubd
Affymetrix HuGeneFL Genome Array Annotation Data (hu6800)
Probe sequence data for microarrays of type hu6800
A data package containing annotation data for humanCHRLOC
A data package containing annotation data for humanLLMappings
A data package containing annotation data for hvuhomology
CodeLink Human Whole Genome Bioarray (~55 000 human genes) Annotation Data
INDAC FlyChip_long_oligonucleotide_002 (FL002) Annotation Data (indac)
A data package containing annotation data for klahomology
CodeLink UniSet Mouse I Bioarray (~10 000 mouse gene targets) Annotation Data
CodeLink UniSet Mouse 20k I Bioarray Annotation Data
Visualize artificial correlation in microarray data
Microarray database and utility functions for microarray data analysis.
Probe sequence data for microarrays of type maize
Probe sequence data for microarrays of type medicago
Integration of Microarray Data for Meta-analysis
A data package containing annotation data for mgrhomology
Affymetrix Murine Genome U74v2 Annotation Data (mgu74a)
Probe sequence data for microarrays of type mgu74a
Affymetrix Murine Genome U74v2 Annotation Data (mgu74av2)
Probe sequence data for microarrays of type mgu74av2
Affymetrix Murine Genome U74v2 Annotation Data (mgu74b)
Probe sequence data for microarrays of type mgu74b
Affymetrix Murine Genome U74v2 Annotation Data (mgu74bv2)
Probe sequence data for microarrays of type mgu74bv2
Affymetrix Murine Genome U74v2 Annotation Data (mgu74c)
Probe sequence data for microarrays of type mgu74c
Affymetrix Murine Genome U74v2 Annotation Data (mgu74cv2)
Probe sequence data for microarrays of type mgu74cv2
Clontech BD Atlas Long Oligos Mouse 5K Annotation Data (mguatlas5k)
A data package containing annotation data for mgug4104a
A data package containing annotation data for mgug4120a
Agilent Mouse Annotation Data (mgug4121a)
Agilent Mouse Genome,  Whole Annotation Data (mgug4122a)
Probe sequence data for microarrays of type mm11ksubammense7
Probe sequence data for microarrays of type mm11ksubammensg7
Probe sequence data for microarrays of type mm11ksubammenst7
Probe sequence data for microarrays of type mm11ksubammentrezg7
Probe sequence data for microarrays of type mm11ksubammrefseq7
Probe sequence data for microarrays of type mm11ksubammug7
Probe sequence data for microarrays of type mm11ksubbmmense7
Probe sequence data for microarrays of type mm11ksubbmmensg7
Probe sequence data for microarrays of type mm11ksubbmmenst7
Probe sequence data for microarrays of type mm11ksubbmmentrezg7
Probe sequence data for microarrays of type mm11ksubbmmrefseq7
Probe sequence data for microarrays of type mm11ksubbmmug7
Probe sequence data for microarrays of type mm430ammense7
Probe sequence data for microarrays of type mm430ammensg7
Probe sequence data for microarrays of type mm430ammenst7
Probe sequence data for microarrays of type mm430ammentrezg7
Probe sequence data for microarrays of type mm430ammrefseq7
Probe sequence data for microarrays of type mm430ammug7
Probe sequence data for microarrays of type mm430bmmense7
Probe sequence data for microarrays of type mm430bmmensg7
Probe sequence data for microarrays of type mm430bmmenst7
Probe sequence data for microarrays of type mm430bmmentrezg7
Probe sequence data for microarrays of type mm430bmmrefseq7
Probe sequence data for microarrays of type mm430bmmug7
Probe sequence data for microarrays of type mm430mmense7
Probe sequence data for microarrays of type mm430mmensg7
Probe sequence data for microarrays of type mm430mmenst7
Probe sequence data for microarrays of type mm430mmentrezg7
Probe sequence data for microarrays of type mm430mmrefseq7
Probe sequence data for microarrays of type mm430mmug7
Probe sequence data for microarrays of type mm74av1mmense7
Probe sequence data for microarrays of type mm74av1mmensg7
Probe sequence data for microarrays of type mm74av1mmenst7
Probe sequence data for microarrays of type mm74av1mmentrezg7
Probe sequence data for microarrays of type mm74av1mmrefseq7
Probe sequence data for microarrays of type mm74av1mmug7
Probe sequence data for microarrays of type mm74av2mmense7
Probe sequence data for microarrays of type mm74av2mmensg7
Probe sequence data for microarrays of type mm74av2mmenst7
Probe sequence data for microarrays of type mm74av2mmentrezg7
Probe sequence data for microarrays of type mm74av2mmrefseq7
Probe sequence data for microarrays of type mm74av2mmug7
Probe sequence data for microarrays of type mmex10stv1mmense7
Probe sequence data for microarrays of type mmex10stv1mmensg7
Probe sequence data for microarrays of type mmex10stv1mmenst7
Probe sequence data for microarrays of type mmex10stv1mmentrezg7
Probe sequence data for microarrays of type mmex10stv1mmrefseq7
Probe sequence data for microarrays of type mmex10stv1mmug7
A data package containing annotation data for mmuhomology
Affymetrix Mouse Expression Set 430 Annotation Data (moe430a)
Probe sequence data for microarrays of type moe430a
Affymetrix Mouse Expression Set 430 Annotation Data (moe430b)
Probe sequence data for microarrays of type moe430b
Affymetrix Mouse Genome 430 2.0 Array Annotation Data (mouse4302)
Probe sequence data for microarrays of type mouse4302
Affymetrix Mouse Genome 430A 2.0 Array Annotation Data (mouse430a2)
Probe sequence data for microarrays of type mouse430a2
A data package containing annotation data for mouseCHRLOC
A data package containing annotation data for mouseLLMappings
Affymetrix Murine 11K Set Annotation Data (mu11ksuba)
Probe sequence data for microarrays of type mu11ksuba
Affymetrix Murine 11K Set Annotation Data (mu11ksubb)
Probe sequence data for microarrays of type mu11ksubb
Affymetrix Murine Genome 19k Set  Annotation Data (mu19ksuba)
Affymetrix Murine Genome 19k Set  Annotation Data (mu19ksubb)
Affymetrix Murine Genome 19k Set  Annotation Data (mu19ksubc)
CodeLink Mouse Whole Genome Bioarray (~36 000 mouse gene targets) Annotation Data
A data package containing annotation data for ncrhomology
Normal Uniform Differential Gene Expression detection
A data package containing annotation data for omyhomology
A data package containing annotation data for osahomology
Probe sequence data for microarrays of type osriceosrefseq7
Probe sequence data for microarrays of type osriceostigr7
Probe sequence data for microarrays of type paeg1a
Presence-Absence Calls from Negative Strand Matching Probesets
A data package containing annotation data for pfahomology
Probe sequence data for microarrays of type plasmodiumanopheles
Probe sequence data for microarrays of type poplar
Probe sequence data for microarrays of type porcine
A data package containing annotation data for ptrhomology
CodeLink UniSet Rat I Bioarray (~10 000 rat gene targets) Annotation Data
Affymetrix Rat Expression Set 230 Annotation Data (rae230a)
Probe sequence data for microarrays of type rae230a
Affymetrix Rat Expression Set 230 Annotation Data (rae230b)
Probe sequence data for microarrays of type rae230b
Affymetrix Rat Genome 230 2.0 Array Annotation Data (rat2302)
Probe sequence data for microarrays of type rat2302
A data package containing annotation data for ratCHRLOC
A data package containing annotation data for ratLLMappings
Affymetrix Rat Genome U34 Set Annotation Data (rgu34a)
Probe sequence data for microarrays of type rgu34a
Affymetrix Rat Genome U34 Set Annotation Data (rgu34b)
Probe sequence data for microarrays of type rgu34b
Affymetrix Rat Genome U34 Set Annotation Data (rgu34c)
Probe sequence data for microarrays of type rgu34c
A data package containing annotation data for rguatlas4k
A data package containing annotation data for rgug4105a
Probe sequence data for microarrays of type rhesus
Probe sequence data for microarrays of type rice
Probe sequence data for microarrays of type rn230arnense7
Probe sequence data for microarrays of type rn230arnensg7
Probe sequence data for microarrays of type rn230arnenst7
Probe sequence data for microarrays of type rn230arnentrezg7
Probe sequence data for microarrays of type rn230arnrefseq7
Probe sequence data for microarrays of type rn230arnug7
Probe sequence data for microarrays of type rn230brnense7
Probe sequence data for microarrays of type rn230brnensg7
Probe sequence data for microarrays of type rn230brnenst7
Probe sequence data for microarrays of type rn230brnentrezg7
Probe sequence data for microarrays of type rn230brnrefseq7
Probe sequence data for microarrays of type rn230brnug7
Probe sequence data for microarrays of type rn230rnense7
Probe sequence data for microarrays of type rn230rnensg7
Probe sequence data for microarrays of type rn230rnenst7
Probe sequence data for microarrays of type rn230rnentrezg7
Probe sequence data for microarrays of type rn230rnrefseq7
Probe sequence data for microarrays of type rn230rnug7
Probe sequence data for microarrays of type rn34arnense7
Probe sequence data for microarrays of type rn34arnensg7
Probe sequence data for microarrays of type rn34arnenst7
Probe sequence data for microarrays of type rn34arnentrezg7
Probe sequence data for microarrays of type rn34arnrefseq7
Probe sequence data for microarrays of type rn34arnug7
Probe sequence data for microarrays of type rnex10stv1rnense7
Probe sequence data for microarrays of type rnex10stv1rnensg7
Probe sequence data for microarrays of type rnex10stv1rnenst7
Probe sequence data for microarrays of type rnex10stv1rnentrezg7
Probe sequence data for microarrays of type rnex10stv1rnrefseq7
Probe sequence data for microarrays of type rnex10stv1rnug7
A data package containing annotation data for rnohomology
Affymetrix Rat Neurobiology U34 Array Annotation Data (rnu34)
Probe sequence data for microarrays of type rnu34
Affymetrix Rat Toxicology U34 Array Annotation Data (rtu34)
Probe sequence data for microarrays of type rtu34
CodeLink Rat Whole Genome Bioarray (~34 000 rat gene targets) Annotation Data
Probe sequence data for microarrays of type saureus
A data package containing annotation data for scehomology
Sample Size and Power Calculation in Micorarray Studies
Segmentation, normalisation and processing of aCGH data.
Probe sequence data for microarrays of type soybean
A data package containing annotation data for spohomology
A data package containing annotation data for sschomology
S-Score Algorithm for Affymetrix Oligonucleotide Microarrays
Probe sequence data for microarrays of type sugarcane
A data package containing annotation data for taehomology
Probe sequence data for microarrays of type test3
Analysis of high-density oligonucleotide tiling arrays
Probe sequence data for microarrays of type tomato
Affymetrix Human X3P Array Annotation Data (u133x3p)
Probe sequence data for microarrays of type u133x3p
Probe sequence data for microarrays of type vitisvinifera
Probe sequence data for microarrays of type vvgrapevvtigr7
A data package containing annotation data for vvihomology
Probe sequence data for microarrays of type wheat
Affymetrix Xenopus laevis Genome Array  Annotation Data (xenopuslaevis)
Probe sequence data for microarrays of type xenopuslaevis
A data package containing annotation data for xlahomology
A data package containing annotation data for xtrhomology
Affymetrix Yeast Genome 2.0 Array Annotation Data (yeast2)
Probe sequence data for microarrays of type yeast2
Spellman et al. (1998) yeast cell cycle microarray data
Affymetrix Yeast Genome S98 Array Annotation Data (ygs98)
Probe sequence data for microarrays of type ygs98
Affymetrix Zebrafish Genome Array Annotation Data (zebrafish)
Probe sequence data for microarrays of type zebrafish
A data package containing annotation data for zmahomology
Microarray QA and statistical data analysis for Applied Biosystems
Genome Survey Micorarray (AB1700) gene expression data.
A subset of arrays from a large acute lymphoblastic leukemia (ALL) study
Drosophila melanogaster genome (BDGP Release 5)
Infrastructure for Biostrings-based genome data packages
QC, normalisation, annotation and exploration of Illumina BeadChip data
Model-View-Controller (MVC) Classes That Use Biobase
Image processing and analysis toolkit for R
software and data for genetical genomics
software and data for genetical genomics (c) 2006 VJ Carey
T cell line infections with HIV-1 LAI (BRU)
A "corrective make-up" program for microarray chips
Support for Springer monograph on Bioconductor
Part of Affymetrix's Spike-In Experiment Data
ADME Rat 16-Assay Bioarray Annotation Data
Light-weight methods for normalization and visualization of microarray data using only basic R data types
Explore microarray data and check quality and reproducibility.
Array annotation data of custom CDF atgenomeatrefseq for original CHIP arabidopsis
Probe sequence data for microarrays of type atgenomeatrefseq
Array annotation data of custom CDF atgenomeattair for original CHIP arabidopsis
Probe sequence data for microarrays of type atgenomeattair
Array annotation data of custom CDF atgenomeattigr for original CHIP arabidopsis
Probe sequence data for microarrays of type atgenomeattigr
Array annotation data of custom CDF ath1atrefseq for original CHIP ath1121501
Probe sequence data for microarrays of type ath1atrefseq
Array annotation data of custom CDF ath1attair for original CHIP ath1121501
Probe sequence data for microarrays of type ath1attair
Array annotation data of custom CDF ath1attigr for original CHIP ath1121501
Probe sequence data for microarrays of type ath1attigr
Normalization and reporting of Illumina SNP bead arrays
Rodriguez et al. (2004) Differential Gene Expression by Memory/Effector T Helper Cells Bearing the Gut-Homing Receptor Integrin alpha4 beta7.
Interface to BioMart databases (e.g. Ensembl, Wormbase, Gramene and Uniprot)
A data package containing annotation data for canine2
Array annotation data of custom CDF cfcanine2cfense for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfense
Array annotation data of custom CDF cfcanine2cfensg for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfensg
Array annotation data of custom CDF cfcanine2cfenst for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfenst
Array annotation data of custom CDF cfcanine2cfentrezg for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfentrezg
Array annotation data of custom CDF cfcanine2cfrefseq for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfrefseq
Array annotation data of custom CDF cfcanine2cfug for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfug
Probe sequence data for microarrays of type citrus
Array annotation data of custom CDF dmdrosophila2dmense for original CHIP drosophila2
Probe sequence data for microarrays of type dmdrosophila2dmense
Array annotation data of custom CDF dmdrosophila2dmensg for original CHIP drosophila2
Probe sequence data for microarrays of type dmdrosophila2dmensg
Array annotation data of custom CDF dmdrosophila2dmenst for original CHIP drosophila2
Probe sequence data for microarrays of type dmdrosophila2dmenst
Array annotation data of custom CDF dmdrosophila2dmrefseq for original CHIP drosophila2
Probe sequence data for microarrays of type dmdrosophila2dmrefseq
Array annotation data of custom CDF dmdrosophila2dmug for original CHIP drosophila2
Probe sequence data for microarrays of type dmdrosophila2dmug
Array annotation data of custom CDF dmgenome1dmense for original CHIP drosgenome1
Probe sequence data for microarrays of type dmgenome1dmense
Array annotation data of custom CDF dmgenome1dmensg for original CHIP drosgenome1
Probe sequence data for microarrays of type dmgenome1dmensg
Array annotation data of custom CDF dmgenome1dmenst for original CHIP drosgenome1
Probe sequence data for microarrays of type dmgenome1dmenst
Array annotation data of custom CDF dmgenome1dmrefseq for original CHIP drosgenome1
Probe sequence data for microarrays of type dmgenome1dmrefseq
Array annotation data of custom CDF dmgenome1dmug for original CHIP drosgenome1
Probe sequence data for microarrays of type dmgenome1dmug
Array annotation data of custom CDF drzebrafishdrense for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrense
Array annotation data of custom CDF drzebrafishdrensg for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrensg
Array annotation data of custom CDF drzebrafishdrenst for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrenst
Array annotation data of custom CDF drzebrafishdrentrezg for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrentrezg
Array annotation data of custom CDF drzebrafishdrrefseq for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrrefseq
Array annotation data of custom CDF drzebrafishdrug for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrug
Broadcast data between R and Java bioinformatics programs
ExpressionSet for response of yeast to heat shock
and other environmental stresses
genefilter: methods for filtering genes from microarray experiments
Array annotation data of custom CDF ggchickenggense for original CHIP chicken
Probe sequence data for microarrays of type ggchickenggense
Array annotation data of custom CDF ggchickenggensg for original CHIP chicken
Probe sequence data for microarrays of type ggchickenggensg
Array annotation data of custom CDF ggchickenggenst for original CHIP chicken
Probe sequence data for microarrays of type ggchickenggenst
Array annotation data of custom CDF ggchickenggrefseq for original CHIP chicken
Probe sequence data for microarrays of type ggchickenggrefseq
Array annotation data of custom CDF ggchickenggug for original CHIP chicken
Probe sequence data for microarrays of type ggchickenggug
CodeLink Human Inflammation 16 Bioarray Annotation Data
Array annotation data of custom CDF hs133ahsense for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsense
Array annotation data of custom CDF hs133ahsensg for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsensg
Array annotation data of custom CDF hs133ahsenst for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsenst
Array annotation data of custom CDF hs133ahsentrezg for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsentrezg
Array annotation data of custom CDF hs133ahsrefseq for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsrefseq
Array annotation data of custom CDF hs133ahsug for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsug
Array annotation data of custom CDF hs133aptense for original CHIP hgu133a
Probe sequence data for microarrays of type hs133aptense
Array annotation data of custom CDF hs133aptensg for original CHIP hgu133a
Probe sequence data for microarrays of type hs133aptensg
Array annotation data of custom CDF hs133aptenst for original CHIP hgu133a
Probe sequence data for microarrays of type hs133aptenst
Array annotation data of custom CDF hs133aptentrezg for original CHIP hgu133a
Probe sequence data for microarrays of type hs133aptentrezg
Array annotation data of custom CDF hs133av2hsense for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsense
Array annotation data of custom CDF hs133av2hsensg for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsensg
Array annotation data of custom CDF hs133av2hsenst for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsenst
Array annotation data of custom CDF hs133av2hsentrezg for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsentrezg
Array annotation data of custom CDF hs133av2hsrefseq for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsrefseq
Array annotation data of custom CDF hs133av2hsug for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsug
Array annotation data of custom CDF hs133av2ptense for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2ptense
Array annotation data of custom CDF hs133av2ptensg for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2ptensg
Array annotation data of custom CDF hs133av2ptenst for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2ptenst
Array annotation data of custom CDF hs133av2ptentrezg for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2ptentrezg
Array annotation data of custom CDF hs133bhsense for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsense
Array annotation data of custom CDF hs133bhsensg for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsensg
Array annotation data of custom CDF hs133bhsenst for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsenst
Array annotation data of custom CDF hs133bhsentrezg for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsentrezg
Array annotation data of custom CDF hs133bhsrefseq for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsrefseq
Array annotation data of custom CDF hs133bhsug for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsug
Array annotation data of custom CDF hs133bptense for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bptense
Array annotation data of custom CDF hs133bptensg for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bptensg
Array annotation data of custom CDF hs133bptenst for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bptenst
Array annotation data of custom CDF hs133bptentrezg for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bptentrezg
Array annotation data of custom CDF hs133phsense for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsense
Array annotation data of custom CDF hs133phsensg for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsensg
Array annotation data of custom CDF hs133phsenst for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsenst
Array annotation data of custom CDF hs133phsentrezg for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsentrezg
Array annotation data of custom CDF hs133phsrefseq for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsrefseq
Array annotation data of custom CDF hs133phsug for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsug
Array annotation data of custom CDF hs133pptense for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133pptense
Array annotation data of custom CDF hs133pptensg for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133pptensg
Array annotation data of custom CDF hs133pptenst for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133pptenst
Array annotation data of custom CDF hs133pptentrezg for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133pptentrezg
Array annotation data of custom CDF hs133xhsense for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsense
Array annotation data of custom CDF hs133xhsensg for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsensg
Array annotation data of custom CDF hs133xhsenst for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsenst
Array annotation data of custom CDF hs133xhsentrezg for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsentrezg
Array annotation data of custom CDF hs133xhsrefseq for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsrefseq
Array annotation data of custom CDF hs133xhsug for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsug
Array annotation data of custom CDF hs133xptense for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xptense
Array annotation data of custom CDF hs133xptensg for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xptensg
Array annotation data of custom CDF hs133xptenst for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xptenst
Array annotation data of custom CDF hs133xptentrezg for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xptentrezg
RNG_MRC Human Pangenomic 25k Set Annotation Data (hs25kresogen)
Array annotation data of custom CDF hs95av2hsense for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsense
Array annotation data of custom CDF hs95av2hsensg for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsensg
Array annotation data of custom CDF hs95av2hsenst for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsenst
Array annotation data of custom CDF hs95av2hsentrezg for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsentrezg
Array annotation data of custom CDF hs95av2hsrefseq for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsrefseq
Array annotation data of custom CDF hs95av2hsug for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsug
Array annotation data of custom CDF hs95av2ptense for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2ptense
Array annotation data of custom CDF hs95av2ptensg for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2ptensg
Array annotation data of custom CDF hs95av2ptenst for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2ptenst
Array annotation data of custom CDF hs95av2ptentrezg for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2ptentrezg
Array annotation data of custom CDF hsex10stv2hsense for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2hsense
Array annotation data of custom CDF hsex10stv2hsensg for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2hsensg
Array annotation data of custom CDF hsex10stv2hsenst for original CHIP huex10stv2
Array annotation data of custom CDF hsex10stv2hsentrezg for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2hsentrezg
Array annotation data of custom CDF hsex10stv2hsrefseq for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2hsrefseq
Array annotation data of custom CDF hsex10stv2hsug for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2hsug
Array annotation data of custom CDF hsex10stv2ptense for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2ptense
Array annotation data of custom CDF hsex10stv2ptensg for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2ptensg
Array annotation data of custom CDF hsex10stv2ptenst for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2ptenst
Array annotation data of custom CDF hsex10stv2ptentrezg for original CHIP huex10stv2
Probe sequence data for microarrays of type hsex10stv2ptentrezg
Array annotation data of custom CDF hsfocushsense for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsense
Array annotation data of custom CDF hsfocushsensg for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsensg
Array annotation data of custom CDF hsfocushsenst for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsenst
Array annotation data of custom CDF hsfocushsentrezg for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsentrezg
Array annotation data of custom CDF hsfocushsrefseq for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsrefseq
Array annotation data of custom CDF hsfocushsug for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsug
Array annotation data of custom CDF hsfocusptense for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocusptense
Array annotation data of custom CDF hsfocusptensg for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocusptensg
Array annotation data of custom CDF hsfocusptenst for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocusptenst
Array annotation data of custom CDF hsfocusptentrezg for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocusptentrezg
Laplace Mixture Model in Microarray Experiments
Simple exercises on cDNA handling with Alizadeh data
CodeLink Mouse Inflammation 16 Bioarray Annotation Data
Array annotation data of custom CDF mm11ksubammense for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammense
Array annotation data of custom CDF mm11ksubammensg for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammensg
Array annotation data of custom CDF mm11ksubammenst for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammenst
Array annotation data of custom CDF mm11ksubammentrezg for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammentrezg
Array annotation data of custom CDF mm11ksubammrefseq for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammrefseq
Array annotation data of custom CDF mm11ksubammug for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammug
Array annotation data of custom CDF mm11ksubbmmense for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmense
Array annotation data of custom CDF mm11ksubbmmensg for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmensg
Array annotation data of custom CDF mm11ksubbmmenst for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmenst
Array annotation data of custom CDF mm11ksubbmmentrezg for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmentrezg
Array annotation data of custom CDF mm11ksubbmmrefseq for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmrefseq
Array annotation data of custom CDF mm11ksubbmmug for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmug
RNG_MRC Mouse Pangenomic 24k Set Annotation Data (mm24kresogen)
Array annotation data of custom CDF mm430ammense for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammense
Array annotation data of custom CDF mm430ammensg for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammensg
Array annotation data of custom CDF mm430ammenst for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammenst
Array annotation data of custom CDF mm430ammentrezg for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammentrezg
Array annotation data of custom CDF mm430ammrefseq for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammrefseq
Array annotation data of custom CDF mm430ammug for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammug
Array annotation data of custom CDF mm430bmmense for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmense
Array annotation data of custom CDF mm430bmmensg for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmensg
Array annotation data of custom CDF mm430bmmenst for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmenst
Array annotation data of custom CDF mm430bmmentrezg for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmentrezg
Array annotation data of custom CDF mm430bmmrefseq for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmrefseq
Array annotation data of custom CDF mm430bmmug for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmug
Array annotation data of custom CDF mm430mmense for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmense
Array annotation data of custom CDF mm430mmensg for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmensg
Array annotation data of custom CDF mm430mmenst for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmenst
Array annotation data of custom CDF mm430mmentrezg for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmentrezg
Array annotation data of custom CDF mm430mmrefseq for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmrefseq
Array annotation data of custom CDF mm430mmug for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmug
Array annotation data of custom CDF mm74av1mmense for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmense
Array annotation data of custom CDF mm74av1mmensg for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmensg
Array annotation data of custom CDF mm74av1mmenst for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmenst
Array annotation data of custom CDF mm74av1mmentrezg for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmentrezg
Array annotation data of custom CDF mm74av1mmrefseq for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmrefseq
Array annotation data of custom CDF mm74av1mmug for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmug
Array annotation data of custom CDF mm74av2mmense for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmense
Array annotation data of custom CDF mm74av2mmensg for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmensg
Array annotation data of custom CDF mm74av2mmenst for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmenst
Array annotation data of custom CDF mm74av2mmentrezg for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmentrezg
Array annotation data of custom CDF mm74av2mmrefseq for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmrefseq
Array annotation data of custom CDF mm74av2mmug for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmug
Array annotation data of custom CDF mm74bv2mmense for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmense
Array annotation data of custom CDF mm74bv2mmensg for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmensg
Array annotation data of custom CDF mm74bv2mmenst for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmenst
Array annotation data of custom CDF mm74bv2mmentrezg for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmentrezg
Array annotation data of custom CDF mm74bv2mmrefseq for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmrefseq
Array annotation data of custom CDF mm74bv2mmug for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmug
Array annotation data of custom CDF mm74cv2mmense for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmense
Array annotation data of custom CDF mm74cv2mmensg for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmensg
Array annotation data of custom CDF mm74cv2mmenst for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmenst
Array annotation data of custom CDF mm74cv2mmentrezg for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmentrezg
Array annotation data of custom CDF mm74cv2mmrefseq for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmrefseq
Array annotation data of custom CDF mm74cv2mmug for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmug
Array annotation data of custom CDF mmex10stv1mmense for original CHIP moex10stv1
Probe sequence data for microarrays of type mmex10stv1mmense
Array annotation data of custom CDF mmex10stv1mmensg for original CHIP moex10stv1
Probe sequence data for microarrays of type mmex10stv1mmensg
Array annotation data of custom CDF mmex10stv1mmenst for original CHIP moex10stv1
Probe sequence data for microarrays of type mmex10stv1mmenst
Array annotation data of custom CDF mmex10stv1mmentrezg for original CHIP moex10stv1
Probe sequence data for microarrays of type mmex10stv1mmentrezg
Array annotation data of custom CDF mmex10stv1mmrefseq for original CHIP moex10stv1
Probe sequence data for microarrays of type mmex10stv1mmrefseq
Array annotation data of custom CDF mmex10stv1mmug for original CHIP moex10stv1
Probe sequence data for microarrays of type mmex10stv1mmug
Nested Effects Models to reconstruct phenotypic hierarchies
Array annotation data of custom CDF osriceosrefseq for original CHIP rice
Probe sequence data for microarrays of type osriceosrefseq
Array annotation data of custom CDF osriceostigr for original CHIP rice
Probe sequence data for microarrays of type osriceostigr
Principle Coordinates and Hotelling's T-Square method
A package that contains the bait to prey directed graphs for protein-protein interactions.
Quantile smoothing and genomic visualization of array data
Clontech BD Atlas Long Oligos Rat 4K Annotation Data (rguatlas4k)
CodeLink Rat Inflammation 16 Bioarray Annotation Data
Array annotation data of custom CDF rn230arnense for original CHIP rae230a
Probe sequence data for microarrays of type rn230arnense
Array annotation data of custom CDF rn230arnensg for original CHIP rae230a
Probe sequence data for microarrays of type rn230arnensg
Array annotation data of custom CDF rn230arnenst for original CHIP rae230a
Probe sequence data for microarrays of type rn230arnenst
Array annotation data of custom CDF rn230arnentrezg for original CHIP rae230a
Probe sequence data for microarrays of type rn230arnentrezg
Array annotation data of custom CDF rn230arnrefseq for original CHIP rae230a
Probe sequence data for microarrays of type rn230arnrefseq
Array annotation data of custom CDF rn230arnug for original CHIP rae230a
Probe sequence data for microarrays of type rn230arnug
Array annotation data of custom CDF rn230brnense for original CHIP rae230b
Probe sequence data for microarrays of type rn230brnense
Array annotation data of custom CDF rn230brnensg for original CHIP rae230b
Probe sequence data for microarrays of type rn230brnensg
Array annotation data of custom CDF rn230brnenst for original CHIP rae230b
Probe sequence data for microarrays of type rn230brnenst
Array annotation data of custom CDF rn230brnentrezg for original CHIP rae230b
Probe sequence data for microarrays of type rn230brnentrezg
Array annotation data of custom CDF rn230brnrefseq for original CHIP rae230b
Probe sequence data for microarrays of type rn230brnrefseq
Array annotation data of custom CDF rn230brnug for original CHIP rae230b
Probe sequence data for microarrays of type rn230brnug
Array annotation data of custom CDF rn230rnense for original CHIP rat2302
Probe sequence data for microarrays of type rn230rnense
Array annotation data of custom CDF rn230rnensg for original CHIP rat2302
Probe sequence data for microarrays of type rn230rnensg
Array annotation data of custom CDF rn230rnenst for original CHIP rat2302
Probe sequence data for microarrays of type rn230rnenst
Array annotation data of custom CDF rn230rnentrezg for original CHIP rat2302
Probe sequence data for microarrays of type rn230rnentrezg
Array annotation data of custom CDF rn230rnrefseq for original CHIP rat2302
Probe sequence data for microarrays of type rn230rnrefseq
Array annotation data of custom CDF rn230rnug for original CHIP rat2302
Probe sequence data for microarrays of type rn230rnug
Array annotation data of custom CDF rn34arnense for original CHIP rgu34a
Probe sequence data for microarrays of type rn34arnense
Array annotation data of custom CDF rn34arnensg for original CHIP rgu34a
Probe sequence data for microarrays of type rn34arnensg
Array annotation data of custom CDF rn34arnenst for original CHIP rgu34a
Probe sequence data for microarrays of type rn34arnenst
Array annotation data of custom CDF rn34arnentrezg for original CHIP rgu34a
Probe sequence data for microarrays of type rn34arnentrezg
Array annotation data of custom CDF rn34arnrefseq for original CHIP rgu34a
Probe sequence data for microarrays of type rn34arnrefseq
Array annotation data of custom CDF rn34arnug for original CHIP rgu34a
Probe sequence data for microarrays of type rn34arnug
Array annotation data of custom CDF rnex10stv1rnense for original CHIP raex10stv1
Probe sequence data for microarrays of type rnex10stv1rnense
Array annotation data of custom CDF rnex10stv1rnensg for original CHIP raex10stv1
Probe sequence data for microarrays of type rnex10stv1rnensg
Array annotation data of custom CDF rnex10stv1rnenst for original CHIP raex10stv1
Probe sequence data for microarrays of type rnex10stv1rnenst
Array annotation data of custom CDF rnex10stv1rnentrezg for original CHIP raex10stv1
Probe sequence data for microarrays of type rnex10stv1rnentrezg
Array annotation data of custom CDF rnex10stv1rnrefseq for original CHIP raex10stv1
Probe sequence data for microarrays of type rnex10stv1rnrefseq
Array annotation data of custom CDF rnex10stv1rnug for original CHIP raex10stv1
Probe sequence data for microarrays of type rnex10stv1rnug
Affymetrix Spike-in Langmuir Isotherm Data Analysis Tool
Visualization routines for high throughput screens
Microarray Data from Yeoh et al. in MACAT format
Array annotation data of custom CDF vvgrapevvtigr for original CHIP vitisvinifera
Probe sequence data for microarrays of type vvgrapevvtigr
Tools and extensions for processing Sweave documents
Drosophila melanogaster genome (FlyBase r5.1)
FHCRC Genomics Shared Resource HuO22 Annotation Data (HuO22)
A data package containing annotation data for JazaeriMetaData
FHCRC Genomics Shared Resource Mu15v1 Annotation Data (Mu15v1)
FHCRC Genomics Shared Resource Mu22v3 Annotation Data (Mu22v3)
expression and CGH data on breast cancer cell lines
Norway981 http://genome-www5.stanford.edu/ Annotation Data (Norway981)
FHCRC Nelson Lab OperonHumanV3 Annotation Data (OperonHumanV3)
PartheenMetaData http://swegene.onk.lu.se Annotation Data (PartheenMetaData)
Roberts2005Annotation Roberts2005Annotation Annotation Data (Roberts2005Annotation)
SHDZ http://genome-www5.stanford.edu/ Annotation Data (SHDZ)
GE CodeLink ADME Rat 16-Assay Bioarray Annotation Data (adme16cod)
Array annotation data of custom CDF btbovinebtense for original CHIP Bovine
Probe sequence data for microarrays of type btbovinebtense
Array annotation data of custom CDF btbovinebtensg for original CHIP Bovine
Probe sequence data for microarrays of type btbovinebtensg
Array annotation data of custom CDF btbovinebtenst for original CHIP Bovine
Probe sequence data for microarrays of type btbovinebtenst
Array annotation data of custom CDF btbovinebtentrezg for original CHIP Bovine
Probe sequence data for microarrays of type btbovinebtentrezg
Array annotation data of custom CDF btbovinebtrefseq for original CHIP Bovine
Probe sequence data for microarrays of type btbovinebtrefseq
Array annotation data of custom CDF btbovinebtug for original CHIP Bovine
Probe sequence data for microarrays of type btbovinebtug
Array annotation data of custom CDF cfcanine2cfvegat for original CHIP canine2
Probe sequence data for microarrays of type cfcanine2cfvegat
A data package containing annotation data for chicken
Probe sequence data for microarrays of type cotton
Array annotation data of custom CDF drzebrafishdrvegat for original CHIP zebrafish
Probe sequence data for microarrays of type drzebrafishdrvegat
Array annotation data of custom CDF ggchickenggentrezg for original CHIP chicken
Probe sequence data for microarrays of type ggchickenggentrezg
GE CodeLink UniSet Human I Bioarray (~10 000 human genes) Annotation Data (h10kcod)
GE CodeLink UniSet Human 20k I Bioarray Annotation Data (h20kcod)
Sample data - Hapmap 100K HIND Affymetrix
Sample data - Hapmap 100K XBA Affymetrix
Sample data - Hapmap 500K NSP Affymetrix
Sample data - Hapmap 500K STY Affymetrix
GE CodeLink Human Inflammation 16 Bioarray Annotation Data (hi16cod)
Array annotation data of custom CDF hs133ahsvegae for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsvegae
Array annotation data of custom CDF hs133ahsvegag for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsvegag
Array annotation data of custom CDF hs133ahsvegat for original CHIP hgu133a
Probe sequence data for microarrays of type hs133ahsvegat
Array annotation data of custom CDF hs133aptrefseq for original CHIP hgu133a
Probe sequence data for microarrays of type hs133aptrefseq
Array annotation data of custom CDF hs133av2hsvegae for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsvegae
Array annotation data of custom CDF hs133av2hsvegag for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsvegag
Array annotation data of custom CDF hs133av2hsvegat for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2hsvegat
Array annotation data of custom CDF hs133av2ptrefseq for original CHIP hgu133a2
Probe sequence data for microarrays of type hs133av2ptrefseq
Array annotation data of custom CDF hs133bhsvegae for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsvegae
Array annotation data of custom CDF hs133bhsvegag for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsvegag
Array annotation data of custom CDF hs133bhsvegat for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bhsvegat
Array annotation data of custom CDF hs133bptrefseq for original CHIP hgu133b
Probe sequence data for microarrays of type hs133bptrefseq
Array annotation data of custom CDF hs133phsvegae for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsvegae
Array annotation data of custom CDF hs133phsvegag for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsvegag
Array annotation data of custom CDF hs133phsvegat for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133phsvegat
Array annotation data of custom CDF hs133pptrefseq for original CHIP hgu133plus2
Probe sequence data for microarrays of type hs133pptrefseq
Array annotation data of custom CDF hs133xhsvegae for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsvegae
Array annotation data of custom CDF hs133xhsvegag for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsvegag
Array annotation data of custom CDF hs133xhsvegat for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xhsvegat
Array annotation data of custom CDF hs133xptrefseq for original CHIP u133x3p
Probe sequence data for microarrays of type hs133xptrefseq
Array annotation data of custom CDF hs95av2hsvegae for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsvegae
Array annotation data of custom CDF hs95av2hsvegag for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsvegag
Array annotation data of custom CDF hs95av2hsvegat for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2hsvegat
Array annotation data of custom CDF hs95av2ptrefseq for original CHIP hgu95av2
Probe sequence data for microarrays of type hs95av2ptrefseq
Array annotation data of custom CDF hsfocushsvegae for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsvegae
Array annotation data of custom CDF hsfocushsvegag for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsvegag
Array annotation data of custom CDF hsfocushsvegat for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocushsvegat
Array annotation data of custom CDF hsfocusptrefseq for original CHIP hgfocus
Probe sequence data for microarrays of type hsfocusptrefseq
Probe sequence data for microarrays of type hthgu133a
Probe sequence data for microarrays of type hthgu133b
Probe sequence data for microarrays of type htmg430a
Probe sequence data for microarrays of type htmg430b
Probe sequence data for microarrays of type htratfocus
GE CodeLink Human Whole Genome Bioarray (~55 000 human genes) Annotation Data (hwgcod)
Illumina Sentrix Human-6 v1 and Sentrix HumanRef-8 v1 Annotation Data (illuminaHumanv1)
Illumina Sentrix Human-6 v2 and Sentrix HumanRef-8 v2 Annotation Data (illuminaHumanv2)
Illumina Sentrix Mouse-6 v1.0a and Sentrix MouseRef-8 v1.0a Annotation Data (illuminaMousev1)
Illumina Sentrix Mouse-6 v1.1 and Sentrix MouseRef-8 v1.1 Annotation Data (illuminaMousev1p1)
A data package containing annotation data for illuminaRatv1
Barnes Benchmark Illumina Tissues Titration Data
Illumina Sentrix HumanRef-8 or Human-6 version 1 Annotation Data (lumiHumanV1)
Illumina Sentrix HumanRef-8 or Human-6 version 2 Annotation Data (lumiHumanV2)
Illumina Sentrix MouseRef-8 or Mouse-6 version 1.0, 1.0B or 1.1 Annotation Data (lumiMouseV1)
Illumina Sentrix RatRef-12 v1 Expression Beadchip Annotation Data (lumiRatV1)
ExpressionSets for Parmigiani et al., 2004 Clinical Cancer Research paper
GE CodeLink UniSet Mouse I Bioarray (~10 000 mouse gene targets) Annotation Data (m10kcod)
GE CodeLink UniSet Mouse 20k I Bioarray Annotation Data (m20kcod)
Array annotation data of custom CDF mamurhesusmamuense for original CHIP Rhesus
Probe sequence data for microarrays of type mamurhesusmamuense
Array annotation data of custom CDF mamurhesusmamuensg for original CHIP Rhesus
Probe sequence data for microarrays of type mamurhesusmamuensg
Array annotation data of custom CDF mamurhesusmamuenst for original CHIP Rhesus
Probe sequence data for microarrays of type mamurhesusmamuenst
Array annotation data of custom CDF mamurhesusmamuentrezg for original CHIP Rhesus
Probe sequence data for microarrays of type mamurhesusmamuentrezg
Array annotation data of custom CDF mamurhesusmamuug for original CHIP Rhesus
Probe sequence data for microarrays of type mamurhesusmamuug
Sample Expression Data - MAQC / HG18 - NimbleGen
GE CodeLink Mouse Inflammation 16 Bioarray Annotation Data (mi16cod)
Array annotation data of custom CDF mm11ksubammvegae for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammvegae
Array annotation data of custom CDF mm11ksubammvegag for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammvegag
Array annotation data of custom CDF mm11ksubammvegat for original CHIP mu11kaa
Probe sequence data for microarrays of type mm11ksubammvegat
Array annotation data of custom CDF mm11ksubbmmvegae for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmvegae
Array annotation data of custom CDF mm11ksubbmmvegag for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmvegag
Array annotation data of custom CDF mm11ksubbmmvegat for original CHIP mu11kba
Probe sequence data for microarrays of type mm11ksubbmmvegat
Array annotation data of custom CDF mm430a2mmense for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmense
Array annotation data of custom CDF mm430a2mmensg for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmensg
Array annotation data of custom CDF mm430a2mmentrezg for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmentrezg
Array annotation data of custom CDF mm430a2mmrefseq for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmrefseq
Array annotation data of custom CDF mm430a2mmug for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmug
Array annotation data of custom CDF mm430a2mmvegae for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmvegae
Array annotation data of custom CDF mm430a2mmvegag for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmvegag
Array annotation data of custom CDF mm430a2mmvegat for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmvegat
Array annotation data of custom CDF mm430ammvegae for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammvegae
Array annotation data of custom CDF mm430ammvegag for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammvegag
Array annotation data of custom CDF mm430ammvegat for original CHIP moe430a
Probe sequence data for microarrays of type mm430ammvegat
Array annotation data of custom CDF mm430bmmvegae for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmvegae
Array annotation data of custom CDF mm430bmmvegag for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmvegag
Array annotation data of custom CDF mm430bmmvegat for original CHIP moe430b
Probe sequence data for microarrays of type mm430bmmvegat
Array annotation data of custom CDF mm430mmvegae for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmvegae
Array annotation data of custom CDF mm430mmvegag for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmvegag
Array annotation data of custom CDF mm430mmvegat for original CHIP mouse4302
Probe sequence data for microarrays of type mm430mmvegat
Array annotation data of custom CDF mm74av1mmvegae for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmvegae
Array annotation data of custom CDF mm74av1mmvegag for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmvegag
Array annotation data of custom CDF mm74av1mmvegat for original CHIP mgu74a
Probe sequence data for microarrays of type mm74av1mmvegat
Array annotation data of custom CDF mm74av2mmvegae for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmvegae
Array annotation data of custom CDF mm74av2mmvegag for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmvegag
Array annotation data of custom CDF mm74av2mmvegat for original CHIP mgu74av2
Probe sequence data for microarrays of type mm74av2mmvegat
Array annotation data of custom CDF mm74bv2mmvegae for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmvegae
Array annotation data of custom CDF mm74bv2mmvegag for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmvegag
Array annotation data of custom CDF mm74bv2mmvegat for original CHIP mgu74bv2
Probe sequence data for microarrays of type mm74bv2mmvegat
Array annotation data of custom CDF mm74cv2mmvegae for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmvegae
Array annotation data of custom CDF mm74cv2mmvegag for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmvegag
Array annotation data of custom CDF mm74cv2mmvegat for original CHIP mgu74cv2
Probe sequence data for microarrays of type mm74cv2mmvegat
FHCRC Nelson Lab mpedbarray Annotation Data (mpedbarray)
GE CodeLink Mouse Whole Genome Bioarray (~36 000 mouse gene targets) Annotation Data (mwgcod)
FHCRC Nelson Lab pedbarrayv10 Annotation Data (pedbarrayv10)
FHCRC Nelson Lab pedbarrayv9 Annotation Data (pedbarrayv9)
Various data sets for use with the puma package
GE CodeLink UniSet Rat I Bioarray (~10 000 rat gene targets) Annotation Data (r10kcod)
GE CodeLink Rat Inflammation 16 Bioarray Annotation Data (ri16cod)
GE CodeLink Rat Whole Genome Bioarray (~34 000 rat gene targets) Annotation Data (rwgcod)
Algorithms for Calculating Microarray Enrichment (ACME)
Mus musculus (mouse) genome (UCSC Release mm8)
Microarray Data related methods that utlize BufferedMatrix objects
A matrix data storage object held in temporary files
Calibration model for estimating absolute expression
levels from microarray data
Expose R functions as web services through Java/Axis/Apache
A function set for the RMA+ and the RMA++ methods.
R Investigation of NimbleGen Oligoarrays
Functions for analysis of real-time quantitative PCR data at SIRS-Lab GmbH
Classes and Methods for high throughput SNP chip data
Annotate microarrays and find orthologs using flat file databases
High level analysis of Affymetrix exon array data
flowCore: Basic structures for flow cytometry data
BeadArray Specific Methods for Illumina Microarrays
This package extends the capabilities of affylmGUI graphical interface.
Platform Design Info for Affymetrix Mapping250K_Nsp
Platform Design Info for Affymetrix Mapping250K_Sty
Platform Design Info for Affymetrix Mapping50K_Hind240
Platform Design Info for Affymetrix Mapping50K_Xba240
Platform Design Information Package Builder
Propagating Uncertainty in Microarray Analysis
Robust likelihood-based survival modeling with microarray data
topGO: Enrichment analysis for Gene Ontology
Affymetrix Quality Assessment and Analysis Tool
Affymetrix data files (CEL, CDF, CHP, EXP, PSI) for testing
Caenorhabditis elegans genome (UCSC version ce2)
Drosophila melanogaster genome (UCSC version dm2)
Saccharomyces cerevisiae genome (UCSC version sacCer1)
Carbon Tetrachloride (CCl4) treated hepatocytes
Calling aberrations for array CGH tumor profiles.
Image processing and image analysis toolkit for R
Unified Approach for Simultaneous Gene Clustering and Differential Expression Identification
A set of annotation maps describing the entire Gene Ontology
Gene set enrichment data structures and methods
Classes and functions for handling genetic data
Functions for designing genetics studies
A package containing metadata for Hs6UG171 arrays
A package containing metadata for LAPOINTE arrays
MAQC data subset for the Affymetrix platform
MAQC data subset for the Illumina platform
Mass spectrum processing by wavelet-based algorithms
Outlier detection using quantile regression on the M-A scatterplots of high-throughput data
A package containing metadata for POCRC arrays
A function set for the Extrapolation Strategy (RMA+) and Extrapolation
Averaging (RMA++) methods.
Interface to EBI Intact protein interaction data base
A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number
Profiling
Gene Ontology-based Semantic Similarity Measures
Methods for fitting Hidden Markov Models to SNP chip data
Affymetrix Arabidopsis Genome Array annotation data (chip ag)
Annotate microarrays and perform cross-species gene expression analyses using flat file databases.
Affymetrix Arabidopsis ATH1 Genome Array annotation data (chip ath1121501)
BGAfun A method to identify specifity determining residues in protein families
Graph examples and use cases in Bioinformatics
Analysis of cell-based screens - revised version of cellHTS
GUI for constructing constraint sets used by the cosmo package
Supervised detection of conserved motifs in DNA sequences
Affymetrix Drosophila Genome Array annotation data (chip drosgenome1)
Affymetrix Drosophila Genome 2.0 Array annotation data (chip drosophila2)
GUI for exploratory data analysis of systems biology data
Family Based Association Tests for genetic data.
Affymetrix Human Cancer G110 Array annotation data (chip hcg110)
A data package containing annotation data for 12k human CpG island microarray
A data package containing annotation data for 8.1k human CpG island microarray
Affymetrix Human Genome Focus Array annotation data (chip hgfocus)
Affymetrix Human Genome U133 Set annotation data (chip hgu133a)
Affymetrix Human Genome U133A 2.0 Array annotation data (chip hgu133a2)
Affymetrix Human Genome U133 Set annotation data (chip hgu133b)
Affymetrix Human Genome U133 Plus 2.0 Array annotation data (chip hgu133plus2)
Affymetrix Human Genome U95 Set annotation data (chip hgu95a)
Affymetrix Human Genome U95 Set annotation data (chip hgu95av2)
Affymetrix Human Genome U95 Set annotation data (chip hgu95b)
Affymetrix Human Genome U95 Set annotation data (chip hgu95c)
Affymetrix Human Genome U95 Set annotation data (chip hgu95d)
Affymetrix Human Genome U95 Set annotation data (chip hgu95e)
Unknown  annotation data (chip hguDKFZ31)
Clontech BD Atlas Long Oligos Human 13K annotation data (chip hguatlas13k)
Unknown  annotation data (chip hgubeta7)
Agilent Human 1 cDNA Microarray Kit annotation data (chip hgug4100a)
Agilent Human 2 cDNA Microarry Kit annotation data (chip hgug4101a)
Agilent Human 1A (V2) annotation data (chip hgug4110b)
Agilent Human 1B annotation data (chip hgug4111a)
Agilent "Human Genome,  Whole" annotation data (chip hgug4112a)
Qiagen Qiagen V3.0 oligo set annotation data (chip hguqiagenv3)
Affymetrix Human Genome HU35K Set annotation data (chip hu35ksuba)
Affymetrix Human Genome HU35K Set annotation data (chip hu35ksubb)
Affymetrix Human Genome HU35K Set annotation data (chip hu35ksubc)
Affymetrix Human Genome HU35K Set annotation data (chip hu35ksubd)
Affymetrix HuGeneFL Genome Array annotation data (chip hu6800)
A data package containing annotation data for illuminaMousev1p1
INDAC FlyChip_long_oligonucleotide_002 (FL002) annotation data (chip indac)
Illumina Sentrix MouseRef-8 or Mouse-6 version 1 or 1.1 Annotation Data (lumiMouseV1)
Illumina Sentrix RatRef-12 version 1 Annotation Data (lumiRatV1)
Functions to handle cDNA microarray data, including several methods of
data analysis
Array annotation data of custom CDF mamurhesusmamurefseq for original CHIP Rhesus
Probe sequence data for microarrays of type mamurhesusmamurefseq
Affymetrix Murine Genome U74v2 annotation data (chip mgu74a)
Affymetrix Murine Genome U74v2 annotation data (chip mgu74av2)
Affymetrix Murine Genome U74v2 annotation data (chip mgu74b)
Affymetrix Murine Genome U74v2 annotation data (chip mgu74bv2)
Affymetrix Murine Genome U74v2 annotation data (chip mgu74c)
Affymetrix Murine Genome U74v2 annotation data (chip mgu74cv2)
Clontech BD Atlas Long Oligos Mouse 5K annotation data (chip mguatlas5k)
Agilent  annotation data (chip mgug4104a)
Agilent  annotation data (chip mgug4120a)
Agilent Mouse annotation data (chip mgug4121a)
Agilent "Mouse Genome,  Whole" annotation data (chip mgug4122a)
Array annotation data of custom CDF mm430a2mmenst for original CHIP Mouse430A_2
Probe sequence data for microarrays of type mm430a2mmenst
Affymetrix Mouse Expression Set 430 annotation data (chip moe430a)
Affymetrix Mouse Expression Set 430 annotation data (chip moe430b)
Affymetrix Mouse Genome 430 2.0 Array annotation data (chip mouse4302)
Affymetrix Mouse Genome 430A 2.0 Array annotation data (chip mouse430a2)
Various Mass Spectrometry raw data example files
Affymetrix Murine 11K Set annotation data (chip mu11ksuba)
Affymetrix Murine 11K Set annotation data (chip mu11ksubb)
Affymetrix Murine Genome 19k Set  annotation data (chip mu19ksuba)
Affymetrix Murine Genome 19k Set  annotation data (chip mu19ksubb)
Affymetrix Murine Genome 19k Set  annotation data (chip mu19ksubc)
Principal Coordinates and Hotelling's T-Square method
A collection of pre-processing functions
Affymetrix Rat Expression Set 230 annotation data (chip rae230a)
Affymetrix Rat Expression Set 230 annotation data (chip rae230b)
Affymetrix Rat Genome 230 2.0 Array annotation data (chip rat2302)
Affymetrix Rat Genome U34 Set annotation data (chip rgu34a)
Affymetrix Rat Genome U34 Set annotation data (chip rgu34b)
Affymetrix Rat Genome U34 Set annotation data (chip rgu34c)
Clontech BD Atlas Long Oligos Rat 4K annotation data (chip rguatlas4k)
Agilent  annotation data (chip rgug4105a)
Agilent Rat annotation data (chip rgug4130a)
Agilent "Rat Genome,  Whole" annotation data (chip rgug4131a)
Affymetrix Rat Neurobiology U34 Array annotation data (chip rnu34)
Affymetrix Rat Toxicology U34 Array annotation data (chip rtu34)
Sequence logos for DNA sequence alignments
Multiple testing using SAM and Efron's empirical Bayes approaches
Affymetrix Human X3P Array annotation data (chip u133x3p)
Probe sequence data for microarrays of type xtropicalis
Affymetrix Yeast Genome 2.0 Array annotation data (chip yeast2)
Affymetrix Yeast Genome S98 Array annotation data (chip ygs98)
Microarray QA and statistical data analysis for Applied
Biosystems Genome Survey Microrarray (AB1700) gene expression
data.
Analysis of data from aCGH experiments using parallel computing
and ff objects
Agreement of Differential Expression Analysis
A subset of arrays from a large acute lymphoblastic leukemia
(ALL) study
Analyze and correct probe positional bias in microarray data due
to RNA degradation
Easy extraction of individual probes in Affymetrix tiling arrays
PreProcessing of Agilent 4x44 array data
Processing and Differential Expression Analysis of Agilent
microRNA chips
ArrayExpress High Throughput Sequencing Processing Pipeline
Access the ArrayExpress Microarray Database at EBI and build
Bioconductor data structures: ExpressionSet, AffyBatch,
NChannelSet
Bayesian Analysis of Chip-chip experiment
Predicting binding site consensus from ranked DNA sequences
Bayesian models for differential gene expression
Baffling Recursive Algorithm for Isotope distributioN
calculations
Arabidopsis lyrata full genome (JGI version V1.0)
Apis mellifera (Honey Bee) full genome (BeeBase assembly4)
Apis mellifera (Honey Bee) full genome (UCSC version apiMel2)
Arabidopsis thaliana full genome (TAIR version from April 23, 2008)
Arabidopsis thaliana full genome (TAIR9)
Bos taurus (Cow) full genome (UCSC version bosTau3)
Bos taurus (Cow) full genome (UCSC version bosTau4)
Caenorhabditis elegans (Worm) full genome (UCSC version ce2)
Caenorhabditis elegans (Worm) full genome (UCSC version ce6)
Canis lupus familiaris full genome (UCSC version canFam2)
Drosophila melanogaster (Fly) full genome (UCSC version dm2)
Drosophila melanogaster (Fly) full genome (UCSC version dm3)
Danio rerio (Zebrafish) full genome (UCSC version danRer5)
Danio rerio (Zebrafish) full genome (UCSC version danRer6)
Danio rerio (Zebrafish) full genome (UCSC version danRer7)
Gasterosteus aculeatus (Stickleback) full genome (UCSC version gasAcu1)
Gallus gallus (Chicken) full genome (UCSC version galGal3)
Homo sapiens (Human) full genome (UCSC version hg17)
Homo sapiens (Human) full genome (UCSC version hg18)
Homo sapiens (Human) full genome (UCSC version hg19)
Macaca mulatta (Rhesus) full genome (UCSC version rheMac2)
Mus musculus (Mouse) full genome (UCSC version mm10)
Mus musculus (Mouse) full genome (UCSC version mm8)
Mus musculus (Mouse) full genome (UCSC version mm9)
Pan troglodytes (Chimp) full genome (UCSC version panTro2)
Rattus norvegicus (Rat) full genome (UCSC version rn4)
Saccharomyces cerevisiae (Yeast) full genome (UCSC version sacCer1)
Saccharomyces cerevisiae (Yeast) full genome (UCSC version sacCer2)
Saccharomyces cerevisiae (Yeast) full genome (UCSC version
sacCer3)
Analysing Illumina BeadArray expression data using Bioconductor
Biclustering Analysis and Results Exploration
Routines for the functional analysis of biological networks
BiocCaseStudies: Support for the Case Studies Monograph
Install/Update Bioconductor and CRAN Packages
String objects representing biological sequences, and matching
algorithms
Transcript expression inference and differential expression
analysis for RNA-seq data
query gene expression data and plots from BrainStars (B*)
Microarray Data related methods that utlize BufferedMatrix
objects
Calibration model for estimating absolute expression levels from
microarray data
Collection of annotation related methods for mass spectrometry
data
An R package for analysis of case-control studies in genetic
epidemiology
CGHbase: Base functions and classes for arrayCGH data analysis.
Normalization of array CGH data with imbalanced aberrations.
Dimension Reduction for Array CGH Data with Minimal Information
Loss.
A normalization method for Copy Number Aberration in cancer
samples
Convert segment data into a region by sample matrix to allow for
other high level computational analyses.
A package to test genetic association with CNV data
CRImage a package to classify cells and calculate tumour
cellularity
Statistical tools for the analysis of ChIP-seq data
R version of CellNOpt, boolean features only
Batch annotation of the peaks identified from either ChIP-seq,
ChIP-chip experiments or any experiments resulted in large
number of chromosome ranges.
Identifying Protein Binding Sites in High-Throughput Sequencing
Data
Analysis of Small Molecule and Screening Data
Coordinated Gene Activity in Pattern Sets
Retrieval from the DAVID bioinformatics data resource into R
Database Enabled Code for Ideal Probe Hybridization Employing R
Identify Differentially Expressed Genes from RNA-seq data
Differential gene expression analysis based on the negative
binomial distribution
Inference of differential exon usage in RNA-Seq
Diffuse large B-cell lymphoma expression data
A set of annotation maps describing the entire Disease Ontology
Disease Ontology Semantic and Enrichment analysis
Differential Binding Analysis of ChIP-Seq peak data
Unified Approach for Simultaneous Gene Clustering and
Differential Expression Identification
EBcoexpress for Differential Co-Expression Analysis
Exploratory Data Analysis and Normalization for RNA-Seq
Data and code package to reproduce Figure panels 4B and 4D from
the ENCODE (2012) paper
Retrieval from the ENVISION bioinformatics data portal into R
ChIP-seq data of ORC-binding sites in Yeast excerpted from Eaton
et al. 2010
R functions for the normalization of Exiqon miRNA array data
Visualize biclusters identified in gene expression data
Annotation package for FeatureDb object(s)
Various data sets for use with the FunciSNP package
Prepares microarray data for submission to GEO
Gene Environment Wide Interaction Search Threshold
GGBase infrastructure for genetics of gene expression package
GGtools
Illumina Golden Gate Human Methylation Cancer Panel Version 1 annotation data (chip GGHumanMethCancerPanelv1)
all 90 hapmap CEU samples, 47K expression, 4mm SNP
software and data for analyses in genetics of gene expression
GO-function: deriving biologcially relevant functions from
statistically significant functions
Gene Regulatory Network Inference Using Time Series
Linear Model Toolset for Gene Set Enrichment Analysis
Data employed in the vignette of the GSVA package
Tools for Genome Wide Association Studies
Data used in the examples and vignettes of the GWASTools package
Gene Expression Signature based Similarity Metric
Design gene based on both mRNA secondary structure and codon
usage bias using Genetic algorithm
Gene selection based on the marginal distributions of gene
profiles that characterized by a mixture of three-component
multivariate distributions
Stability and Aggregation of ranked gene lists
Pedigree and genetic relationship functions
Plotting genomic information from Ensembl
Tools for making and manipulating transcript centric annotations
Representation and manipulation of genomic intervals
Plotting data and annotation information along genomic
coordinates
Heterogeneous error model for identification of differentially
expressed genes under multiple conditions
Gene set over-representation, enrichment and network analyses
for high-throughput screens
Automated analysis of high-throughput qPCR data
Heatmaps with row and/or column covariates and colored clusters
High Throughput Chromosome Conformation Capture analysis
Agilent Chips that use Agilent design number 026652 annotation
data (chip HsAgilentDesign026652)
Exon-level probeset chromosome location for microarrays of type HuEx
Exon-level probeset chromosome location for microarrays of type
HuEx
Isotopic peak pattern deconvolution for Protein Mass
Spectrometry by template matching
Infrastructure for manipulating intervals on sequences
Illumina Illumina Human Methylation 27k annotation data (chip IlluminaHumanMethylation27k)
Illumina Human Methylation 450k annotation data
Annotation for Illumina's 450k methylation arrays
Probe sequence data for microarrays of type
IlluminaHumanMethylation450k
A graphical user interface to conduct a dose-response analysis
of microarray data
Multi sample aCGH analysis package using kernel convolution
KEGGgraph: A graph approach to KEGG PATHWAY in R and
Bioconductor
Methods for analyzing microarray data using Local Pooled Error
(LPE) method
A correction of the local pooled error (LPE) method to replace
the asymptotic variance adjustment with an unbiased adjustment
based on sample size.
LVS normalization for Agilent miRNA data
Selected data from the HiC paper of E. Lieberman-Aiden et al. in
Science (2009)
MBCB (Model-based Background Correction for Beadarray)
Modelling Experimental Data from MeDIP Enrichment
Uniform interfaces to R machine learning procedures for data in
Bioconductor containers
MSnbase: Base Functions and Classes for MS-based Proteomics
MiChip Parsing and Summarizing Functions
A package for de novo CNV detection in case-parent trios
Agilent Chips that use Agilent design number 026655 annotation
data (chip MmAgilentDesign026655)
Exon-level probeset chromosome location for microarrays of type
MoEx
Predicting functional networks and modules of chromatin factors
controlling adult stem cell fate from RNA interference screens
Predict gene network using an Ordinary Differential Equation
(ODE) based method
Functional Principal Component Analysis to Narrow Down
Transcription Factor Binding Site Candidates
Functions for normalisation of RT-qPCR data
Norway981 http://genome-www5.stanford.edu/ Annotation Data
(Norway981)
An R package for nucleosome positioning prediction
Operating characteristics plus sample size and local fdr for
microarray experiments
Optimized local intensity-dependent normalisation of two-color
microarrays
Provides structure and functions for the analysis of OTU data
Outlier detection using quantile regression on the M-A
scatterplots of high-throughput data
Posterior association networks and functional modules inferred
from rich phenotypes of gene perturbations
Phenotypes and cellular organizational units
Probabilistic inference for Nucleosome Positioning with
MNase-based or Sonicated Short-read Data
Local Pooled Error Test for Differential Expression with Paired
High-throughput Data
expression and copy number data on clear cell renal carcinoma
samples
PRojection Onto the Most Interesting Statistical Evidence
PartheenMetaData http://swegene.onk.lu.se Annotation Data
(PartheenMetaData)
PolyPhen Predictions for Homo sapiens dbSNP build 131
Qualitiy Control of Gated Flow Cytometry Experiments
A package for importing and analyzing data from Roche's Genome
Sequencer System.
A package for survival time prediction based on a piecewise
baseline hazard Cox regression model.
Display and manipulate graphs in Cytoscape
A package for nonlinear dimension reduction with Isomap and LLE.
Analysis of high-throughput sequencing data processed by
restriction enzyme digestion
R interface to the MAPPER database of transcription factor
binding sites
Mapping of Signalling Networks through Synthetic Genetic
Interaction Analysis by RNAi
Estimate Pairwise Interactions from multidimensional features
Statistical analysis of high-throughput RNAi screens
RPA: Robust Probabilistic Averaging for probe-level analysis
Open-source toolkit to analyse data from xCELLigence System
(RTCA)
This package is designed to perform Gene Set Analysis across
multiple genomic platforms
Exon-level probeset chromosome location for microarrays of type
RaEx
Optimyzed Cellular Hierarchies for Flow Cytometry
Bridging the gap between hierarchical network representation and
functional analysis.
A function set for the Extrapolation Strategy (RMA+) and
Extrapolation Averaging (RMA++) methods.
R Investigation of ChIP-chip Oligoarrays
MicroArray Gene-expression-based Program In Error rate
estimation
Package to work with miRNAs and miRNA targets with R
Agilent Chips that use Agilent design number 028282 annotation
data (chip RnAgilentDesign028282)
RNA-Seq Tutorial (EBI Cambridge UK, October 2011)
Statistical analysis of Solexa sequencing data
Binary alignment (BAM), variant call (BCF), or tabix file import
Rsubread: a super fast, sensitive and accurate read aligner for
mapping next-generation sequencing reads
Rtreemix: Mutagenetic trees mixture models.
SIFT Predictions for Homo sapiens dbSNP build 132
Integrated Analysis on two human genomic datasets
Functions for analysis of real-time quantitative PCR data at
SIRS-Lab GmbH
A Segmental Maximum A Posteriori Approach to Array-CGH Copy
Number Profiling
Visualizations for copy number alterations
SNP locations for Homo sapiens (dbSNP BUILD 130)
SNP locations for Homo sapiens (dbSNP BUILD 131)
SNP locations for Homo sapiens (dbSNP Build 132)
SNP locations for Homo sapiens (dbSNP Build 134)
SNP locations for Homo sapiens (dbSNP Build 135)
Signaling Pathway Impact Analysis (SPIA) using combined evidence
of pathway over-representation and unusual signaling
perturbations
A compilation of metadata from NCBI SRA and tools
Sample Size and Power Analysis for Microarray Data
Identifies cell population in flow cytometry data.
Classes and methods for high-throughput short-read sequencing
data.
Condition specific detection from expression data
Simple tiling array analysis of Affymetrix ChIP-chip data
Enabling stream processing of large files
The Cancer Genome Atlas Illumina 450k methylation example data
Network reverse engineering from time course data.
Quality control for target capture experiments
Example GC-MS data for TargetSearch Package
A package for the analysis of GC-MS metabolite profiling data.
A fast scatterplot smoother suitable for microarray
normalization
Annotation package for the Athaliana_BioMart_plantsmart10_TxDb
object
Annotation package for TranscriptDb object(s)
A Hidden Markov Model for high throughput genotyping arrays
VegaMC: A Package Implementing a Variational Piecewise Smooth
Model for Identification of Driver Chromosomal Imbalances in
Cancer
An R package for copy number data segmentation
XDE: a Bayesian hierarchical model for cross-study analysis of
differential gene expression
Automated Affymetrix Array Analysis Base Package
Automated Affymetrix Array Analysis Classification Package
Automated Affymetrix Array Analysis Core Package
Automated Affymetrix Array Analysis Preprocessing Package
Automated Affymetrix Array Analysis Reporting Package
Automated Affymetrix Array Analysis Umbrella Package
GE CodeLink ADME Rat 16-Assay Bioarray annotation data (chip
adme16cod)
structured corruption of affymetrix cel file data
Linear Model of background subtraction and the Langmuir isotherm
Parallelized preprocessing methods for Affymetrix
Oligonucleotide Arrays
Functions useful for those doing repetitive analyses with
Affymetrix GeneChips.
alternative CDF environments (aka probeset mappings)
Annotate microarrays and perform cross-species gene expression
analyses using flat file databases.
Base Level Annotation databases for anopheles
ANalysis Of Translational Activity (ANOTA).
Base Level Annotation databases for arabidopsis
Light-weight methods for normalization and visualization of
microarray data using only basic R data types
multivariate outlier detection for expression array QA
Affymetrix Arabidopsis ATH1 Genome Array annotation data (chip
ath1121501)
Methods to Find the Gene Expression Modules that Represent the
Drivers of Kauffman's Attractor Landscape
Empirical Bayesian analysis of patterns of differential
expression in count data
Quality assessment and low-level analysis for Illumina BeadArray
data
Rodriguez et al. (2004) Differential Gene Expression by
Memory/Effector T Helper Cells Bearing the Gut-Homing Receptor
Integrin alpha4 beta7.
Identify differentially expressed genes in microarray
time-course data
BGAfun A method to identify specifity determining residues in
protein families
Interface to BioMart databases (e.g. Ensembl, COSMIC ,Wormbase
and Gramene)
Basic graphic utilities for visualization of genomic data.
Bayesian Inference of Regulation of Transcriptional Activity
Bladder gene expression data illustrating batch effects
Base Level Annotation databases for bovine
Affymetrix bovine annotation data (chip bovine)
Gene expression dataset published by Schmidt et al. [2008]
(MAINZ).
Genexpression dataset published by van't Veer et al. [2002] and
van de Vijver et al. [2002] (NKI).
Gene expression dataset published by Desmedt et al. [2007]
(TRANSBIG).
Gene expression dataset published by Sotiriou et al. [2007]
(UNT).
Gene expression dataset published by Miller et al. [2005] (UPP).
Gene expression datasets published by Wang et al. [2005] and
Minn et al. [2007] (VDX).
Development and validation of diagnostic tests from
high-dimensional molecular data: Datasets
Base Level Annotation databases for canine
Affymetrix canine annotation data (chip canine)
Affymetrix canine2 annotation data (chip canine2)
Meta-analysis of high-throughput experiments using feature
annotations
Affymetrix celegans annotation data (chip celegans)
CEU (N=60) genotypes from 1000 genomes pilot phase I
ceuhm3: genotype (HapMap phase III) and expression data for CEPH
CEU cohort
Complete Genomics Diversity Panel, chr17 on 46 individuals
An example dataset for use with the charm package
Analysis of DNA methylation data from CHARM microarrays
resources for genetics of gene expression based on Cheung et al
2010
Base Level Annotation databases for chicken
Affymetrix chicken annotation data (chip chicken)
Base Level Annotation databases for chimp
chipseq: A package for analyzing chipseq data
A package for the clinical proteomic profiling data analysis
Classification by local similarity threshold
Tools for performing taxonomic assignment.
statistical analysis and visulization of functional profiles for
genes and gene clusters
cn.farms - Factor Analysis for copy number estimation
cn.mops - Mixture of Poissons for CNV detection in NGS data
Gene Set Analysis of (Rare) Copy Number Variants
Data used in the vignette of the cnvGSA package
Genotype Calling (CRLMM) and Copy Number Analysis tool for
Affymetrix SNP 5.0 and 6.0 and Illumina arrays.
Analysis, exploration, manipulation, and visualization of
Cufflinks high-throughput sequencing data.
Significance of periodic expression pattern in time-series data
Efficient design and analysis of factorial two-colour microarray
data
Data and analysis scripts for David, Huber et al. yeast tiling
array paper
The ddCt Algorithm for the Analysis of Quantitative Real-Time
PCR (qRT-PCR)
Test for subclonal SNVs in deep sequencing experiments.
The double Kolmogorov-Smirnov package for evaluating multiple
testing procedures.
Geneset enrichment based on InterPro domain signatures
data and software for checking Dressman JCO 25(5) 2007
Affymetrix Drosophila Genome Array annotation data (chip
drosgenome1)
Affymetrix Drosophila Genome 2.0 Array annotation data (chip
drosophila2)
dsQTL, data excerpt from Degner et al. 2012 Nature letter
Dual KS Discriminant Analysis and Classification
The GASSCO method for correcting for slide-dependent
gene-specific dye bias
Example data for the dyebias package, which implements the
GASSCO method.
Count summarization and normalization for RNA-Seq data.
Affymetrix E. coli Genome 2.0 Array annotation data (chip
ecoli2)
Base Level Annotation databases for E coli K12 Strain
Base Level Annotation databases for E coli Sakai Strain
Empirical analysis of digital gene expression data in R
Expression data analysis via the Iterative Signature Algorithm
data provided by UCSC for Cd4 raw measures of DnaseI
hypersensitivity
CNV detection from exome sequencing read depth
FABIA: Factor Analysis for Bicluster Acquisition
FARMS - Factor Analysis for Robust Microarray Summarization
Quality assessment and control for FFPE microarray expression
data
Tools for extracting information from a FlowJo workspace and
working with the data in the flowCore paradigm.
Non-parametric Flow Cytometry Data Gating
flowPlots: analysis plots and data class for gated flow
cytometry data
Statistical methods for the analysis of flow cytometry data
Parameter Optimization for Flow Cytometry Data Transformation
A data package containing a flowJo xml workspace and associated
fcs files for testing the flowWorkspace package.
Import flowJo Workspaces into BioConductor and replicate flowJo
gating with flowCore
GaGa hierarchical model for high-throughput data analysis
Generally Applicable Gene-set Enrichment for Pathway Analysis
Genecards derived annotations for gahgu133a custom probeset definitions
Probe sequence data for microarrays of type gahgu133a
Genecards derived annotations for gahgu133b custom probeset definitions
Probe sequence data for microarrays of type gahgu133b
Genecards derived annotations for gahgu133plus2 custom probeset definitions
Probe sequence data for microarrays of type gahgu133plus2
Genecards derived annotations for gahgu95av2 custom probeset definitions
Probe sequence data for microarrays of type gahgu95av2
Genecards derived annotations for gahgu95b custom probeset definitions
Probe sequence data for microarrays of type gahgu95b
Genecards derived annotations for gahgu95c custom probeset definitions
Probe sequence data for microarrays of type gahgu95c
Genecards derived annotations for gahgu95d custom probeset definitions
Probe sequence data for microarrays of type gahgu95d
Genecards derived annotations for gahgu95e custom probeset definitions
Probe sequence data for microarrays of type gahgu95e
GAIA: An R package for genomic analysis of significant
chromosomal aberrations.
ExpressionSet for response of yeast to heat shock and other
environmental stresses
Data and XML files for GatingML Test suite
Spike-in data for GC/MS data and methods within flagme
Lengths of mRNA transcripts for a number of genomes
genefilter: methods for filtering genes from microarray
experiments
Graphics related functions for Bioconductor
Metadata for fast genotyping with the 'crlmm' package
Provides classes similar to ExpressionSet for copy number
analysis
support for tutorial on genetics of gene expression ISMB 2011
Genome Intervals and Read Alignments for Functional Exploration
Testing groups of covariates/features for association with a
response variable, with applications to gene set testing
goProfiles: an R package for the statistical analysis of
functional profiles
Gene Ontology analyser for RNA-seq and other length biased data
Gaussian Process Ranking and Estimation of Gene Expression
time-series
representing and modeling data in the NHGRI GWAS catalog
GE CodeLink UniSet Human I Bioarray (~10 000 human genes)
annotation data (chip h10kcod)
GE CodeLink UniSet Human 20k I Bioarray annotation data (chip
h20kcod)
Affymetrix Human Genome Focus Array annotation data (chip
hgfocus)
Affymetrix Human Genome U133A 2.0 Array annotation data (chip
hgu133a2)
Vectors used by frma for microarrays of type hgu133a
Affymetrix Human Genome U133 Plus 2.0 Array annotation data
(chip hgu133plus2)
Vectors used by frma for microarrays of type hgu133plus2
Affymetrix Human Genome 219 Plate annotation data (chip hgu219)
Probe sequence data for microarrays of type hgu219
A data package containing annotation data for hgu2beta7
Unknown annotation data (chip hguDKFZ31)
Clontech BD Atlas Long Oligos Human 13K annotation data (chip
hguatlas13k)
Agilent Human 1 cDNA Microarray Kit annotation data (chip
hgug4100a)
Agilent Human 2 cDNA Microarry Kit annotation data (chip
hgug4101a)
Agilent "Human Genome, Whole" annotation data (chip hgug4112a)
agilent AMADID 026652 annotation data (chip hgug4845a)
GE CodeLink Human Inflammation 16 Bioarray annotation data (chip
hi16cod)
YRI hapmap + expression (GENEVAR), Build 36, r23a genotypes
Homology information for Arabidopsis thaliana from Inparanoid
Homology information for Caenorhabditis elegans from Inparanoid
Homology information for Drosophila melanogaster from Inparanoid
Homology information for Danio rerio from Inparanoid
Homology information for Homo Sapiens from Inparanoid
Homology information for Mus musculus from Inparanoid
Homology information for Rattus norvegicus from Inparanoid
Homology information for Saccharomyces cerevisiae from
Inparanoid
RNG_MRC Human Pangenomic 25k Set annotation data (chip hs25kresogen)
Quality Control, Visualization and Processing for
High-Throughput Sequencing data
Affymetrix HT Human Genome U133 Array Plate Set annotation data
(chip hthgu133a)
Affymetrix HT Human Genome U133 Array Plate Set annotation data
(chip hthgu133b)
Probe sequence data for microarrays of type hthgu133pluspm
Probe sequence data for microarrays of type htmg430pm
Probe sequence data for microarrays of type htrat230pm
Affymetrix Human Genome HU35K Set annotation data (chip
hu35ksuba)
Affymetrix Human Genome HU35K Set annotation data (chip
hu35ksubb)
Affymetrix Human Genome HU35K Set annotation data (chip
hu35ksubc)
Affymetrix Human Genome HU35K Set annotation data (chip
hu35ksubd)
Affymetrix Human Gene 1.0-ST Probeset Array Revision 8
annotation data (chip hugene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Transcriptcluster Revision 8
annotation data (chip hugene10sttranscriptcluster)
Probe sequence data for microarrays of type hugene10stv1
Affymetrix Human Gene 1.1-ST Array Probeset Revision 4
annotation data (chip hugene11stprobeset)
Affymetrix Human Gene 1.1-ST Array Transcriptcluster Revision 4
annotation data (chip hugene11sttranscriptcluster)
Base Level Annotation databases for human
GE CodeLink Human Whole Genome Bioarray (~55 000 human genes)
annotation data (chip hwgcod)
iASeq: integrating multiple sequencing datasets for detecting
allele-specific events
Iterative Binary Biclustering of Genesets
Bayesian Modeling of ChIP-chip Data Through Hidden Ising Models
GUI based visualization for flow cytometry
Bayesian Hierarchical Modeling of ChIP-seq Data Through Hidden
Ising Models
Interaction Based Homogeneity for Evaluating Gene Lists
Illumina HumanHT12WGDASLv3 annotation data (chip
illuminaHumanWGDASLv3)
Illumina HumanWGDASLv4 annotation data (chip
illuminaHumanWGDASLv4)
Illumina HumanWG6v1 annotation data (chip illuminaHumanv1)
Illumina HumanWG6v2 annotation data (chip illuminaHumanv2)
Illumina HumanWGv2 annotation data (chip illuminaHumanv2BeadID)
Illumina HumanHT12v3 annotation data (chip illuminaHumanv3)
Illumina HumanHT12v4 annotation data (chip illuminaHumanv4)
Illumina MouseWG6v1 annotation data (chip illuminaMousev1)
Illumina MouseWG6v1p1 annotation data (chip illuminaMousev1p1)
Illumina MouseWG6v2 annotation data (chip illuminaMousev2)
Illumina Ratv1 annotation data (chip illuminaRatv1)
Analysis of high-throughput microscopy-based screens
Collection of Merging Techniques for Gene Expression Data
Data from 1000 Genomes, NA19240 (female) chr6 excerpt
INDAC FlyChip_long_oligonucleotide_002 (FL002) annotation data
(chip indac)
Data provided to show the usage of functions in iontree package
Data management and analysis of ion trees from ion-trap mass
spectrometry
Analysis and quantitation of isobarically tagged MSMS proteomics
data
The Iterative Bayesian Model Averaging (BMA) algorithm
The Iterative Bayesian Model Averaging (BMA) Algorithm For
Survival Analysis
JODA algorithm for quantifying gene deregulation using knowledge
leeBamViews -- multiple yeast RNAseq samples excerpted from Lee
2009
Identifying Differential Effects in Tiling Microarray Data
me Human Illumina annotation data (chip lumiHumanAll)
me Mouse Illumina annotation data (chip lumiMouseAll)
me Mouse Illumina annotation data (chip lumiRatAll)
BeadArray Specific Methods for Illumina Methylation and
Expression Microarrays
ExpressionSets for Parmigiani et al., 2004 Clinical Cancer
Research paper
GE CodeLink UniSet Mouse I Bioarray (~10 000 mouse gene targets)
annotation data (chip m10kcod)
GE CodeLink UniSet Mouse 20k I Bioarray annotation data (chip
m20kcod)
Bayesian Piecewise Constant Regression for DNA copy number
estimation
Microarray database and utility functions for microarray data
analysis.
Significant Gene Expression Profile Differences in Time Course
Microarray Data
Functions to handle cDNA microarray data, including several
methods of data analysis
Base Level Annotation databases for malaria
Microbial Assemblage Normalized Transcript Analysis
Masking probes with binding affinity differences
Mahalanobis Distance Quality Control for microarrays
Methods for visualization and statistics on DNA methylation data
Clontech BD Atlas Long Oligos Mouse 5K annotation data (chip
mguatlas5k)
Agilent annotation data (chip mgug4104a)
Agilent annotation data (chip mgug4120a)
Agilent "Mouse Genome, Whole" annotation data (chip mgug4122a)
GE CodeLink Mouse Inflammation 16 Bioarray annotation data (chip
mi16cod)
gene target tabale of miRNA for human/mouse used for MiRaGE
package
miRNApath: Pathway Enrichment for miRNA Expression Data
Data and functions for dealing with microRNAs
Example data for the Illumina Methylation 450k array
Analyze Illumina's 450k methylation arrays
Probe sequence data for microarrays of type mirna10
RNG_MRC Mouse Pangenomic 24k Set annotation data (chip mm24kresogen)
Affymetrix Mouse Expression Set 430 annotation data (chip
moe430a)
Affymetrix Mouse Expression Set 430 annotation data (chip
moe430b)
Affymetrix Mouse Gene 1.0-ST Array Probeset Revision 8
annotation data (chip mogene10stprobeset)
Affymetrix Mouse Gene 1.0-ST Array Transcriptcluster Revision 8
annotation data (chip mogene10sttranscriptcluster)
Probe sequence data for microarrays of type mogene10stv1
Affymetrix Mouse Gene 1.1-ST Array Probeset Revision 4
annotation data (chip mogene11stprobeset)
Affymetrix Mouse Gene 1.1-ST Array Transcriptcluster Revision 4
annotation data (chip mogene11sttranscriptcluster)
Example data for the mosaics package, which implements MOSAiCS,
a statistical framework to analyze one-sample or two-sample
ChIP-seq data
MOSAiCS (MOdel-based one and two Sample Analysis and Inference
for ChIP-Seq)
A package for discriminative motif discovery, designed for high
throughput sequencing dataset
Base Level Annotation databases for mouse
Affymetrix Mouse Genome 430 2.0 Array annotation data (chip
mouse4302)
Vectors used by frma for microarrays of type mouse4302
Affymetrix Mouse Genome 430A 2.0 Array annotation data (chip
mouse430a2)
Affymetrix Murine Genome 19k Set annotation data (chip
mu19ksuba)
Affymetrix Murine Genome 19k Set annotation data (chip
mu19ksubb)
Affymetrix Murine Genome 19k Set annotation data (chip
mu19ksubc)
affy and illumina raw data for assessing outlier detector
performance
GE CodeLink Mouse Whole Genome Bioarray (~36 000 mouse gene
targets) annotation data (chip mwgcod)
parser for netCDF, mzXML, mzData and mzML files (mass
spectrometry data)
ncdfFlow: A package that provides ncdf based storage for flow
cytometry data.
Affymetrix nugohs1a520180 annotation data (chip nugohs1a520180)
Probe sequence data for microarrays of type nugohs1a520180
Affymetrix nugomm1a520177 annotation data (chip nugomm1a520177)
Probe sequence data for microarrays of type nugomm1a520177
Functions for Multinomial Occupancy Distribution
Classes for high-throughput arrays supported by oligo and crlmm
Preprocessing tools for oligonucleotide arrays.
A graphical interface designed to facilitate analysis of
microarrays and miRNA/RNA-seq data on laptops.
Genome wide annotation for E coli strain K12
Genome wide annotation for E coli strain Sakai
A data package containing annotation data for org.Hs.ipi.db
Genome wide annotation for Streptomyces coelicolor
Genome wide annotation for Toxoplasma gondii
Parametric And Resistant Outlier DYtection
Subset of BAM files from "Pasilla" experiment
Data package with per-exon and per-gene read counts of RNA-seq
samples of Pasilla knock-down by Brooks et al., Genome Research
2011.
pcaGoPromoter.Hs.hg19 is a data package used by pcaGoPromoter
pcaGoPromoter.Mm.mm9 is a data package used by pcaGoPromoter
pcaGoPromoter.Rn.rn4 is a data package used by pcaGoPromoter
pcaGoPromoter is used to analyze DNA micro array data
Platform Design Info for NimbleGen 081229_hg18_promoter_medip_hx1
Platform Design Info for NimbleGen
2006-07-18_hg18_refseq_promoter
Platform Design Info for NimbleGen 2006-07-18_mm8_refseq_promoter
Platform Design Info for NimbleGen 2006-10-31_rn34_refseq_promoter
Platform Design Info for The Manufacturer's Name AG
Platform Design Info for Affymetrix AraGene-1_0-st
Platform Design Info for Affymetrix AraGene-1_1-st
Platform Design Info for The Manufacturer's Name ATH1-121501
Platform Design Info for The Manufacturer's Name Barley1
Platform Design Info for Affymetrix BovGene-1_1-st
Platform Design Info for The Manufacturer's Name Bovine
Platform Design Info for The Manufacturer's Name Bsubtilis
Platform Design Info for Affymetrix CanGene-1_1-st
Platform Design Info for The Manufacturer's Name Canine_2
Platform Design Info for The Manufacturer's Name Canine
Platform Design Info for The Manufacturer's Name Celegans
Platform Design Info for NimbleGen charm_hg18_example
Platform Design Info for The Manufacturer's Name Chicken
Platform Design Info for The Manufacturer's Name Citrus
Platform Design Info for The Manufacturer's Name Cotton
Platform Design Info for Affymetrix CyRGene-1_1-st
Platform Design Info for Affymetrix Cytogenetics_Array
Platform Design Info for The Manufacturer's Name DrosGenome1
Platform Design Info for The Manufacturer's Name Drosophila_2
Platform Design Info for The Manufacturer's Name E_coli_2
Platform Design Info for The Manufacturer's Name Ecoli_ASv2
Platform Design Info for The Manufacturer's Name Ecoli
Platform Design Info for Affymetrix EquGene-1_0-st
Platform Design Info for Affymetrix EquGene-1_1-st
Platform Design Info for NimbleGen feinberg_hg18_me_hx1
Platform Design Info for NimbleGen feinberg_mm8_me_hx1
Platform Design Info for Affymetrix FelGene-1_1-st
Platform Design Info for Affymetrix GenomeWideSNP_5
Platform Design Info for Affymetrix GenomeWideSNP_6
Platform Design Info for The Manufacturer's Name HC_G110
Platform Design Info for The Manufacturer's Name HG-Focus
Platform Design Info for The Manufacturer's Name HG-U133_Plus_2
Platform Design Info for The Manufacturer's Name HG-U133A_2
Platform Design Info for The Manufacturer's Name HG-U133A_tag
Platform Design Info for The Manufacturer's Name HG-U133A
Platform Design Info for The Manufacturer's Name HG-U133B
Platform Design Info for The Manufacturer's Name HG-U219
Platform Design Info for The Manufacturer's Name HG_U95A
Platform Design Info for The Manufacturer's Name HG_U95Av2
Platform Design Info for The Manufacturer's Name HG_U95B
Platform Design Info for The Manufacturer's Name HG_U95C
Platform Design Info for The Manufacturer's Name HG_U95D
Platform Design Info for The Manufacturer's Name HG_U95E
Platform Design Info for NimbleGen hg18_60mer_expr
Platform Design Info for The Manufacturer's Name
HT_HG-U133_Plus_PM
Platform Design Info for The Manufacturer's Name HT_HG-U133A
Platform Design Info for The Manufacturer's Name HT_MG-430A
Platform Design Info for The Manufacturer's Name Hu6800
Platform Design Info for Affymetrix HuEx-1_0-st-v2
Platform Design Info for Affymetrix HuGene-1_0-st-v1
Platform Design Info for Affymetrix HuGene-1_1-st-v1
Platform Design Info for The Manufacturer's Name Maize
Platform Design Info for The Manufacturer's Name Medicago
Platform Design Info for The Manufacturer's Name MG_U74A
Platform Design Info for The Manufacturer's Name MG_U74Av2
Platform Design Info for The Manufacturer's Name MG_U74B
Platform Design Info for The Manufacturer's Name MG_U74Bv2
Platform Design Info for The Manufacturer's Name MG_U74C
Platform Design Info for The Manufacturer's Name MG_U74Cv2
Platform Design Info for The Manufacturer's Name miRNA-1_0
Platform Design Info for The Manufacturer's Name MOE430A
Platform Design Info for The Manufacturer's Name MOE430B
Platform Design Info for Affymetrix MoEx-1_0-st-v1
Platform Design Info for Affymetrix MoGene-1_0-st-v1
Platform Design Info for Affymetrix MoGene-1_1-st-v1
Platform Design Info for The Manufacturer's Name Mouse430_2
Platform Design Info for The Manufacturer's Name Mouse430A_2
Platform Design Info for The Manufacturer's Name Mu11KsubA
Platform Design Info for The Manufacturer's Name Mu11KsubB
Platform Design Info for Affymetrix OviGene-1_0-st
Platform Design Info for Affymetrix OviGene-1_1-st
Platform Design Info for The Manufacturer's Name Pae_G1a
Platform Design Info for The Manufacturer's Name
Plasmodium_Anopheles
Platform Design Info for The Manufacturer's Name Poplar
Platform Design Info for The Manufacturer's Name Porcine
Platform Design Info for Affymetrix PorGene-1_0-st
Platform Design Info for Affymetrix PorGene-1_1-st
Platform Design Info for The Manufacturer's Name RAE230A
Platform Design Info for The Manufacturer's Name RAE230B
Platform Design Info for Affymetrix RaEx-1_0-st-v1
Platform Design Info for Affymetrix RaGene-1_0-st-v1
Platform Design Info for Affymetrix RaGene-1_1-st-v1
Platform Design Info for The Manufacturer's Name Rat230_2
Platform Design Info for The Manufacturer's Name RG_U34A
Platform Design Info for The Manufacturer's Name RG_U34B
Platform Design Info for The Manufacturer's Name RG_U34C
Platform Design Info for Affymetrix RheGene-1_1-st
Platform Design Info for The Manufacturer's Name Rhesus
Platform Design Info for The Manufacturer's Name Rice
Platform Design Info for The Manufacturer's Name RN_U34
Platform Design Info for The Manufacturer's Name S_aureus
Platform Design Info for The Manufacturer's Name Soybean
Platform Design Info for Affymetrix SoyGene-1_1-st
Platform Design Info for The Manufacturer's Name Sugar_Cane
Platform Design Info for The Manufacturer's Name Tomato
Platform Design Info for The Manufacturer's Name U133_X3P
Platform Design Info for The Manufacturer's Name Vitis_Vinifera
Platform Design Info for The Manufacturer's Name wheat
Platform Design Info for The Manufacturer's Name X_laevis_2
Platform Design Info for The Manufacturer's Name X_tropicalis
Platform Design Info for The Manufacturer's Name Xenopus_laevis
Platform Design Info for The Manufacturer's Name Yeast_2
Platform Design Info for The Manufacturer's Name YG_S98
Platform Design Info for Affymetrix ZebGene-1_1-st
Platform Design Info for The Manufacturer's Name Zebrafish
Classification of Microarray Samples using Penalized
Discriminant Methods
Tools to test association between gene expression and phenotype
in a way that is efficient, structured, fast and scalable. We
also provide tools to do GSEA (Gene set enrichment analysis)
and copy number variation.
Handling and analysis of high-throughput phylogenetic sequence
data.
Pairwise INTegration of functional genomics data
Statistical tools and data structures for plate-based flow
cytometry
Detect differential expression in microarray and proteomics
datasets with the Power Law Global Error Model (PLGEM)
Probe level Locally moderated Weighted t-tests.
Affymetrix porcine annotation data (chip porcine)
A package that contains the bait to prey directed graphs for
protein-protein interactions.
Inference for predictive networks designed for (but not limited
to) genomic data
Probe sequence data for microarrays of type primeview
Prediction of Oligomerization of Coiled Coil Proteins
PCA-based gene filtering for Affymetrix arrays
Data-driven normalization strategies for high-throughput qPCR
data.
Reverse engineering of molecular regulatory networks with
qp-graphs
GE CodeLink UniSet Rat I Bioarray (~10 000 rat gene targets)
annotation data (chip r10kcod)
Analysis of Chromosome Conformation Capture and Next-generation
Sequencing (3C-seq)
R implementation from MAT program to normalize and analyze
tiling arrays and ChIP-chip data.
Affymetrix Rat Gene 1.0-ST Array Probeset Revision 7 annotation
data (chip ragene10stprobeset)
Affymetrix Rat Gene 1.0-ST Array Transcriptcluster Revision 7
annotation data (chip ragene10sttranscriptcluster)
Probe sequence data for microarrays of type ragene10stv1
Affymetrix Rat Gene 1.1-ST Array Probeset Revision 4 annotation
data (chip ragene11stprobeset)
Affymetrix Rat Gene 1.1-ST Array Transcriptcluster Revision 4
annotation data (chip ragene11sttranscriptcluster)
Randomization routines for Clinical Trials
Affymetrix Rat Genome 230 2.0 Array annotation data (chip
rat2302)
Probe sequence data for microarrays of type rattoxfx
Clontech BD Atlas Long Oligos Rat 4K annotation data (chip
rguatlas4k)
Agilent annotation data (chip rgug4105a)
Agilent "Rat Genome, Whole" annotation data (chip rgug4131a)
Base Level Annotation databases for rhesus
Normalized gene expression dataset published by Wollbold et al.
[2009] (WOLLBOLD).
GE CodeLink Rat Inflammation 16 Bioarray annotation data (chip
ri16cod)
Affymetrix Rat Neurobiology U34 Array annotation data (chip
rnu34)
Qualitative biclustering algorithm for expression data analysis
in R
R interface to genome browsers and their annotation tracks
GE CodeLink Rat Whole Genome Bioarray (~34 000 rat gene targets)
annotation data (chip rwgcod)
Methods for identifying small RNA loci from high-throughput
sequencing data
Estimation of per-position bias in high-throughput sequencing
data
serumStimulation is a data package which is used by examples in
package pcaGoPromoter
statistics for integrative genomics analyses in R
Multiple testing using SAM and Efron's empirical Bayes
approaches
The package contains BioGRID interactions for various organisms
in a simple format
SnpMatrix and XSnpMatrix classes and methods
SPADE -- An analysis and visualization tool for Flow Cytometry
Visualization of high-throughput assays in microtitre plate or
slide format
Microarray Spot Segmentation and Gridding for Blocks of
Microarray Spots
Stepwise Classification of Cancer Samples using Clinical and
Molecular Data
TargetScan miRNA target predictions for human
TargetScan miRNA target predictions for mouse
Transcription factor Inference through Gaussian process
Reconstruction of Expression
Transcript mapping with high-density oligonucleotide tiling
arrays
Statistical Analysis for Developmental Microarray Time Course
Data
Probe sequence data for microarrays of type tinesath1
Transcriptional Regulatory Inference from Genetics of Gene
ExpRession
Top Scoring Pairs for Microarray Classification
RNA-seq count data employed in the vignette of the tweeDEseq
package
RNA-seq data analysis using the Poisson-Tweedie family of
distributions
Build virtual array from different microarray platforms
Base Level Annotation databases for worm
Base Level Annotation databases for xenopus
Affymetrix Xenopus laevis annotation data (chip xlaevis)
Probe sequence data for microarrays of type xlaevis2
Export plotting files to the xmapBridge for visualisation in
X:Map
Core access to the xmap database (installed separately)
Processing and Analysis of Affymetrix Oligonucleotide Arrays
including Exon Arrays, Whole Genome Arrays and Plate Arrays
Affymetrix expression data quality control and reproducibility
analysis
Base Level Annotation databases for yeast
Spellman et al. (1998) and Pramila/Breeden (2006) yeast cell
cycle microarray data
Yeast genome RNA sequencing data based on Nagalakshmi et. al.
Yeast RNA-Seq Experimental Data from Lee et al. 2008
Base Level Annotation databases for zebrafish
Affymetrix zebrafish annotation data (chip zebrafish)
Code for Building Annotation Database Packages
Caenorhabditis elegans (Worm) full genome (UCSC version ce10)
Canis lupus familiaris (Dog) full genome (UCSC version canFam3)
Gallus gallus (Chicken) full genome (UCSC version galGal4)
Pan troglodytes (Chimp) full genome (UCSC version panTro3)
Rattus norvegicus (Rat) full genome (UCSC version rn5)
Saccharomyces cerevisiae (Yeast) full genome (UCSC version
sacCer2)
Add-on to CellNOptR: Discretized time treatments
Training of boolean logic models of signalling networks using
prior knowledge networks and perturbation data.
ChIPXpress: enhanced transcription factor target gene
identification from ChIP-seq and ChIP-chip data using publicly
available gene expression profiles
Cheminformatics of Drug-like Small Molecule Data
Detect the correlated mutations based on selection pressure
Differential Binding of Transcription Factor with ChIP-seq
Dispersion shrinakge for sequencing data.
Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data
Dirichlet-Multinomial Mixture Model Machine Learning for
Microbiome Data
EasyqpcR for low-throughput real-time quantitative PCR data
analysis
Annotation package for FANTOM4 promoters identified from THP-1
cells
Annotation package for Illumina Infinium DNA methylation array
probes
UCSC common SNPs track for dbSNP build 135
Integrating Functional Non-coding Datasets with Genetic
Association Studies to Identify Candidate Regulatory SNPs
Illumina Golden Gate Human Methylation Cancer Panel Version 1
annotation data (chip GGHumanMethCancerPanelv1)
Gene Set Variation Analysis for microarray and RNA-seq data
Build Regulatory Network from ChIP-chip/ChIP-seq and Expression
Data
Copy number prediction with correction for GC and mappability
bias for HTS data
High-throughput sequencing data analysis pipeline.
Annotation package for the Homo.sapiens object
Illumina Illumina Human Methylation 27k annotation data (chip
IlluminaHumanMethylation27k)
Annotation for Illumina's 27k methylation arrays
An annotation and visualization package for multi-types and
multi-groups expression data in KEGG pathway
An Annotated Collection of Protein-DNA Binding Sequence Motifs
Annotation package for the Mus.musculus object
Exploratory analysis and differential expression for RNA-seq
data
Software to enable the smooth interfacing of different database
packages.
Pathway Analysis with Down-weighting of Overlapping Genes
(PADOG)
D. melanogaster background for PWMEnrich
Make an R function available in the Galaxy web platform
Workflow to process tandem MS files and build MassBank records
Subset of BAM files from the "TBX20" experiment
Annotation package for the Rattus.norvegicus object
R-based analysis of ChIP-seq And Differential Expression - a
tool for integrating a count-based ChIP-seq analysis with
differential expression summary data.
Interactive visualization and manipulation of nested networks.
Tools for making reports in various formats
Converting experimental metadata from ISA-tab into Bioconductor
data structures
SNP locations for Homo sapiens (dbSNP Build 130)
SNP locations for Homo sapiens (dbSNP Build 137)
Read density map construction and accession. Visualization of
ChIPSeq and RNASeq data sets.
Agilent expression array processing package
Genome annotation and visualisation package pertaining to
Affymetrix arrays and NGS analysis.
An extension of the bigmemory package with added safety,
convenience, and a factor class.
Example whole genome bisulfite data for the bsseq package
Analyze, manage and store bisulfite sequencing data
Development and validation of diagnostic tests from
high-dimensional molecular data
chroGPS: navigating through the epigenome
Distinguish direct and indirect interactions with Graphical
Modelling
Detection of subclonal SNVs in deep sequencing experiments.
Copy number variant detection from exome sequencing read depth
Data sets for FABIA (Factor Analysis for Bicluster Acquisition)
Flow cytometer sensitivity-Automatic Q and B Calculations.
Flexible Maximum Common Substructure (FMCS) Searching
Tools for Connectivity Map-like analyses
Provides convenience methods to work with GMAP and GSNAP from
within R
hapFabia: Identification of very short segments of identity by
descent (IBD) characterized by rare variants in large
sequencing data
Vectors used by frma for microarrays of type huex.1.0.st.v2
Vectors used by frma for microarrays of type hugene.1.0.st.v1frmavecs
Identification of Protein Amino acid Clustering
Linear Model decomposition for Designed Multivariate Experiments
Utilities to compute, compare, and plot the agreement between
ordered vectors of features (ie. distinct genomic experiments).
The package includes Correspondence-At-the-TOP (CAT) analysis.
DNA methylation data analysis and visualization
Plot stacked logos for single or multiple DNA, RNA and amino
acid sequence
Vectors used by frma for microarrays of type mouse430a2
Regression-based network inference using Bayesian Model
Averaging
Platform Design Info for Affymetrix Atdschip_tiling
Platform Design Info for Affymetrix BovGene-1_0-st
Platform Design Info for Affymetrix CanGene-1_0-st
Platform Design Info for Affymetrix CynGene-1_0-st
Platform Design Info for Affymetrix CynGene-1_1-st
Platform Design Info for Affymetrix CyRGene-1_0-st
Platform Design Info for Affymetrix FelGene-1_0-st
Platform Design Info for Affymetrix HuGene-2_0-st
Platform Design Info for Affymetrix HuGene-2_1-st
Platform Design Info for Affymetrix miRNA-2_0
Platform Design Info for Affymetrix miRNA-3_0
Platform Design Info for Affymetrix RCnGene-1_1-st
Platform Design Info for Affymetrix RheGene-1_0-st
Platform Design Info for Affymetrix RJpGene-1_1-st
Platform Design Info for Affymetrix ZebGene-1_0-st
rSFFreader reads in sff files generated by Roche 454 and Life
Sciences Ion Torrent sequencers
An R interface to the Ontology Lookup Service
Differentiation of Human Embryonic Stem Cells under Hypoxia gene
expression dataset by Prado-Lopez et al. (2010)
Label-free data analysis pipeline for optimal identification and
quantitation
Triform finds enriched regions (peaks) in transcription factor
ChIP-sequencing data
Wavelet-Based Models for Tiling Array Transcriptome Analysis
Example dataset for normalization of Illumina 450k Methylation
data
Adaptive Robust Regression normalization for Illumina
methylation data
A client for retrieving Bioconductor objects from AnnotationHub
Bos taurus (Cow) full genome (UCSC version bosTau6)
Processing and analyzing bisulfite sequencing data
Bioconductor facilities for parallel evaluation
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing
data for precise mapping of transcription start sites and
promoterome mining
Integration of CellNOptR to add missing links
Functional connections between drugs, genes and diseases as
revealed by common gene-expression changes
Synthetic Expression Data for Gene Regulatory Network Inference
from the 2009 DREAM4 challenge
Drivernet: uncovering somatic driver mutations modulating
transcriptional networks in cancer
Comparison of disease and drug profiles using Gene set
Enrichment Analysis
CAGE data from FANTOM3 and FANTOM4 projects
Annotation package for Illumina Infinium DNA methylation probes
UCSC common SNPs track for dbSNP build 137
Identification of Mutational Clusters in Proteins via a Graph
Theoretical Approach.
Semi-supervised adaptive-height snipping of the Hierarchical
Clustering tree
Mapping genetic interactions in human cancer cells with RNAi and
multiparametric phenotyping
Filter replicated high-throughput transcriptome sequencing data
Probe sequence data for microarrays of type HuEx
Example ChIP-Seq data for the MMDiff package
Statistical Testing for ChIP-Seq data sets
Analysis of an ICA decomposition obtained on genomics data
Probe sequence data for microarrays of type MoEx
Analysis of Variation in ChIP-seq using Functional PCA
Statistics
Predict metabolic pathway activity based on metabolomics data
Experimental data for the PathNet package
An R package for pathway analysis using topological information
RIPSeeker: a statistical package for identifying
protein-associated transcripts from RIP-seq experiments
Aligned reads from RNAseq experiment: Transcription profiling by
high throughput sequencing of HNRNPC knockdown and control HeLa
cells
RSVSim: an R/Bioconductor package for the simulation of
structural variations
Probe sequence data for microarrays of type RaEx
Companion package to the 'Using R and Bioconductor for
proteomics data analysis' publication
Rsubread: an R package for the alignment, summarization and
analyses of next-generation sequencing data
Spatial Analysis of Network Associations
Single-channel array normalization (SCAN) and University
Probability of expression Codes (UPC)
Signal-to-Noise applied to Gene Expression Experiments
General Sample Size and Power Analysis for Microarray and
Next-Generation Sequencing Data
Big Data Management of Genome-wide Sequencing Variants
Gene Set Enrichment Analysis (GSEA) of RNA-Seq Data: integrating
differential expression and splicing
An example cancer whole genome sequencing data for the SomatiCA
package
SomatiCA: identifying, characterizing, and quantifying somatic
copy number aberrations from cancer genome sequencing
Create, manipulate, visualize splicing graphs, and assign
RNA-seq reads to them
Codelink ADME Rat 16-Assay Bioarray annotation data (chip
adme16cod)
Normal colon and cancer preprocessed affy data for antiProfile
building.
Implementation of gene expression anti-profiles
Copy Number study and Segmentation for multivariate biological
data
Characterization of Alternative Splicing based on Paired-End
Reads
A package for secondary analysis of fusion products
Visualization and manage of the protein-protein interaction
networks.
Gene set analysis exploiting pathway topology
cn.farms - factor analysis for copy number estimation
Segmentation of single- and multi-track copy number data by
penalized least squares regression.
Clinically Annotated Data for the Ovarian Cancer Transcriptome
DEXUS - Identifying Differential Expression in RNA-Seq Studies
with Unknown Conditions or without Replicates
Accelerated similarity searching of small molecules
R Interface to Ensembl Variant Effect Predictor
Epigenetic and gene expression data normalization and
integration with mixture models
A data package containing two flowJo xml workspaces and
associated fcs files for testing the flowWorkspace and openCyto
packages.
A web interface for gene-set enrichment analyses
classify diseases and build associated gene networks using gene
expression profiles
Codelink UniSet Human I Bioarray (~10 000 human genes)
annotation data (chip h10kcod)
Codelink UniSet Human 20k I Bioarray annotation data (chip
h20kcod)
Codelink Human Inflammation 16 Bioarray annotation data (chip
hi16cod)
Vectors used by frma for microarrays of type hthgu133a
Affymetrix ChipName not specified annotation data (chip
hugene20stprobeset)
Affymetrix hugene20st annotation data (chip
hugene20sttranscriptcluster)
Affymetrix hugene21st annotation data (chip hugene21stprobeset)
Affymetrix hugene21st annotation data (chip
hugene21sttranscriptcluster)
Codelink Human Whole Genome Bioarray (~55 000 human genes)
annotation data (chip hwgcod)
integrated Bayesian Modeling of eQTL data
Parsing Illumina microarray output files
Joint analysis of multiple ChIP-Seq data sets
Leukemia's microarray gene expression data (expressionSet).
Linear Programming Model for Network Inference
Illumina Human Expression BeadChips (include all versions:
version 1 to 4) annotation data (chip lumiHumanAll)
Illumina Mouse Expression BeadChips (include all versions:
version 1 to 2) annotation data (chip lumiMouseAll)
Illumina Rat Expression BeadChips (include version: version 1)
annotation data (chip lumiRatAll)
Codelink UniSet Mouse I Bioarray (~10 000 mouse gene targets)
annotation data (chip m10kcod)
Codelink UniSet Mouse 20k I Bioarray annotation data (chip
m20kcod)
Statistical analysis for sparse high-throughput sequencing
Codelink Mouse Inflammation 16 Bioarray annotation data (chip
mi16cod)
Affymetrix mogene20st annotation data (chip mogene20stprobeset)
Affymetrix mogene20st annotation data (chip
mogene20sttranscriptcluster)
Affymetrix mogene21st annotation data (chip
mogene21sttranscriptcluster)
Codelink Mouse Whole Genome Bioarray (~36 000 mouse gene
targets) annotation data (chip mwgcod)
(Dynamic) Nested Effects Models and Deterministic Effects
Propagation Networks to reconstruct phenotypic hierarchies
A unifying bioinformatics framework for spatial proteomics
SummarizedExperiment for RNA-Seq of primary cultures of
parathyroid tumors by Haglund et al., J Clin Endocrinol Metab
2012.
RNA-Seq data of primary cultures of parathyroid tumors by
Haglund et al., J Clin Endocrinol Metab 2012.
a tool set for pathway based data integration and visualization
Platform Design Info for Affymetrix miRNA-3_1
Platform Design Info for Affymetrix MoGene-2_0-st
Platform Design Info for Affymetrix MoGene-2_1-st
Platform Design Info for Affymetrix RaGene-2_0-st
Platform Design Info for Affymetrix RaGene-2_1-st
Handling and analysis of high-throughput microbiome census data.
Platform for integrative analysis of omics data
Piecewise Linear Regression Splines (PLRS) for the association
between DNA copy number and gene expression
Probe region expression estimation for RNA-seq data for improved
microarray comparability
Principal Variance Component Analysis (PVCA)
Codelink UniSet Rat I Bioarray (~10 000 rat gene targets)
annotation data (chip r10kcod)
Parses BioPax files and represents them in R
Affymetrix ragene20st annotation data (chip ragene20stprobeset)
Affymetrix ragene20 annotation data (chip
ragene20sttranscriptcluster)
Affymetrix ragene20st annotation data (chip ragene21stprobeset)
Affymetrix ragene20st annotation data (chip
ragene21sttranscriptcluster)
Codelink Rat Inflammation 16 Bioarray annotation data (chip
ri16cod)
Codelink Rat Whole Genome Bioarray (~34 000 rat gene targets)
annotation data (chip rwgcod)
Search and visualize intramolecular triplex-forming sequences in
DNA
Illumina 450 methylation array normalization and metrics
Vectors used by frma for microarrays of type ygs98
Analysis of big data from aCGH experiments using parallel
computing and ff objects
An R package for subset-based association analysis of
heterogeneous traits and subtypes
Implementation of wave correction for arrays
A Bayesian Approach for Geneset Selection
Macaca mulatta (Rhesus) full genome (UCSC version rheMac3)
Creates an interface to the BiGG database, provides a framework
for simulation and produces flux graphs
High-performing routines for the randomization of a bipartite
graph (or a binary event matrix) preserving degree distribution
(or marginal totals).
Standard styles for vignettes and other Bioconductor documents
CNVrd2: a read depth-based method to detect and genotype complex
common copy number variants from next generation sequencing
data.
An R package to uncover high-resolution protein-DNA interactions
in ChIP-exo replicates
Chip Analysis Methylation Pipeline for Illumina
HumanMethylation450
R interface to a subset of OpenBabel functionalities
DNase I footprinting analysis of DNase-seq data
Poor prognosis colon cancer is defined by a molecularly distinct
subtype and precursor lesion
Supplementary data package for Dona et al. (2013) containing
example images and tables
An R package for gene and isoform differential expression
analysis of RNA-seq data
Functional gene networks derived from biological enrichment
analyses
Gene expression data from breast cancer cells under FGFR2
signalling perturbation.
Master regulators of FGFR2 signalling and breast cancer risk.
Illumina HumanMethylation data on sorted blood cell populations
Cell-to-cell expression variability followed by signal
reinforcement progressively segregates early mouse lineages
Annotation Package combining variant data from 1000 Genomes
Project for Illumina HumanMethylation450 Bead Chip probes
Illumina microarray files (IDAT) for testing
A lung cancer dataset that can be used with maPredictDSC package
for developing outcome prediction models from Affymetrix CEL
files.
Protein Significance Analysis in LC-MS, SRM and DIA for
Label-free or Label-based Proteomics Experiments
High-quality circular visualization of omic data
A set of annotation maps describing the entire PANTHER Gene
Ontology
Protemics Standard Initiative Common QUery InterfaCe
Protein co-expression network analysis (ProCoNA).
Quality Control of Gated Flow Cytometry Experiments
An R Package for retrieving data from DAVID into R objects using
Web Services API.
Inference on agreement between two lists
Reconstruction of transcriptional networks and analysis of
master regulators
Similarity measures for chemical compounds
Interactive visualization and manipulation of nested networks
Infer miRNA-mRNA interactions using paired expression data from
a single sample
Rsubread: high-performance read alignment, quantification and
mutation discovery
Single-channel array normalization (SCAN) and Universal
exPression Codes (UPC)
STRINGdb (Search Tool for the Retrieval of Interacting proteins
database)
Identification of Mutational Clusters in 3D Protein Space via
Simulation.
SwimR: A Suite of Analytical Tools for Quantification of C.
elegans Swimming Behavior
TargetScore: Infer microRNA targets using
microRNA-overexpression data and sequence information
Representation and manpulation of external sequences
expression + genotype on 79 unrelated CEU individuals
A package for detection and secondary analysis of fusion
products
Gene set enrichment analysis for ChIP-seq data
Gene set enrichment for ChIP-seq peak data
Visualization and management of the protein-protein interaction
networks.
This package classifies putative polyadenylation sites as true
or false/internally oligodT primed.
High throughput analysis of T cell antigen receptor sequences
Finding Co-occuring motifs of transcription factor binding sites
Generate customized protein database from NGS data, with a focus
on RNA-Seq data, for proteomics search.
Fast lasso-based isoform prediction as a flow problem
Estimate proliferation in cell-tracking dye studies
A probabilistic algorithm for matching and comparing multiple
flow cytometry samples
Automated Quadratic Characterization of Flow Cytometer
Instrument Sensitivity: Q, B and CVinstrinsic calculations.
Mismatch Tolerant Maximum Common Substructure Searching
Data and XML files for Gating-ML Test suite
Managing alignment tallies using a hdf5 backend
Vectors used by frma for microarrays of type hgu133a2
Affymetrix hugene20 annotation data (chip hugene20stprobeset)
Affymetrix hugene20 annotation data (chip
hugene20sttranscriptcluster)
Affymetrix hugene21 annotation data (chip hugene21stprobeset)
Affymetrix hugene21 annotation data (chip
hugene21sttranscriptcluster)
Integrative analysis of structural variations
Package for enabling powerful shiny web displays of Bioconductor
objects
Illumina Human Illumina expression annotation data (chip
lumiHumanAll)
Illumina Mouse Illumina expression annotation data (chip
lumiMouseAll)
Illumina Rat Illumina expression annotation data (chip
lumiRatAll)
Phenotype prediction using microarray data: approach of the best
overall team in the IMPROVER Diagnostic Signature Challenge
RGLists from the Glas and Buyse breast cancer studies
Meta-analysis of RNA-Seq count data in multiple studies
detect different methylation level (DMR)
Implementation of the differential equation model described in
"Dynamical modelling of phenotypes in a genome-wide RNAi
live-cell imaging assay" (submitted).
Experimental data associated to the paper "Dynamical modelling
of phenotypes in a genome-wide RNAi live-cell imaging assay"
(submitted).
Vectors used by frma for microarrays of type mogene.1.0.st.v1frmavecs
Affymetrix mogene20 annotation data (chip mogene20stprobeset)
Affymetrix mogene20 annotation data (chip
mogene20sttranscriptcluster)
Affymetrix mogene21 annotation data (chip mogene21stprobeset)
Affymetrix mogene21 annotation data (chip
mogene21sttranscriptcluster)
Exploratory Data Analysis of LC-MS/MS data by spectral counts
An R package to perform the network enrichment analysis (NEA).
Multiple co-inertia analysis of omics datasets
Hierarchical Gating Pipeline for flow cytometry data
Quantify deregulation of pathways in cancer
R framework for exploration and analysis of respirometry data
Statistical Tools for volume data from 2D Gel Electrophoresis
qusage: Quantitative Set Analysis for Gene Expression
Identification of transcriptional regulatory modules from PPI
networks
Affymetrix ragene20 annotation data (chip ragene20stprobeset)
Affymetrix ragene21 annotation data (chip ragene21stprobeset)
Affymetrix ragene21 annotation data (chip
ragene21sttranscriptcluster)
Assign rfPred functional prediction scores to a missense
variants list
Shrinkage estimation of dispersion in Negative Binomial models
for RNA-seq experiments with small sample size
Annotation for the copy number analysis of deep sequencing
cancer data with seqCNA
Copy number analysis of high-throughput sequencing cancer data
ExpressionSets from the van't Veer and Van de Vijver breast
cancer studies
Classification of alternative splicing and prediction of coding
potential from RNA-seq data.
Manages align gap positions from RNA-seq data
Stepwise Classification of Cancer Samples using High-dimensional
Data Sets
A supra-hexagonal map for analysing tabular omics data
Comparison between multiple levels of gene expression.
expression + genotype on 79 unrelated YRI individuals
ABSSeq: a new RNA-Seq analysis method based on absolute
expression differences and generalized Poisson model
Adaptive Signature Selection and InteGratioN (ASSIGN)
Affymetrix Human Genome U133A 2.0 Array (GPL571) Expression Data
Package
Affyhgu133Plus2Expr (GPL570) Expression Data Package
Affymetrix Human hgu133a Array (GPL96) Expression Data Package
Affymetrix Mouse Genome 430 2.0 Array (GPL1261) Expression Data
Package
Affymetrix Mouse 430 2.0 Array (GPL1261) Expression Data Package
Gene Expression Atlas query and gene set enrichment package.
BEAT - BS-Seq Epimutation Analysis Toolkit
Full genome sequences for Apis mellifera (BeeBase assembly4)
Full masked genome sequences for Apis mellifera (UCSC version
apiMel2)
Full genome sequences for Apis mellifera (UCSC version apiMel2)
Full genome sequences for Arabidopsis thaliana (TAIR version
from April 23, 2008)
Full genome sequences for Arabidopsis thaliana (TAIR9)
Full masked genome sequences for Bos taurus (UCSC version
bosTau3)
Full genome sequences for Bos taurus (UCSC version bosTau3)
Full masked genome sequences for Bos taurus (UCSC version
bosTau4)
Full genome sequences for Bos taurus (UCSC version bosTau4)
Full masked genome sequences for Bos taurus (UCSC version
bosTau6)
Full genome sequences for Bos taurus (UCSC version bosTau6)
Full genome sequences for Caenorhabditis elegans (UCSC version
ce10)
Full genome sequences for Caenorhabditis elegans (UCSC version
ce2)
Full genome sequences for Caenorhabditis elegans (UCSC version
ce6)
Full masked genome sequences for Canis lupus familiaris (UCSC
version canFam2)
Full genome sequences for Canis lupus familiaris (UCSC version
canFam2)
Full masked genome sequences for Canis lupus familiaris (UCSC
version canFam3)
Full genome sequences for Canis lupus familiaris (UCSC version
canFam3)
Full masked genome sequences for Drosophila melanogaster (UCSC
version dm2)
Full genome sequences for Drosophila melanogaster (UCSC version
dm2)
Full masked genome sequences for Drosophila melanogaster (UCSC
version dm3)
Full genome sequences for Drosophila melanogaster (UCSC version
dm3)
Full masked genome sequences for Danio rerio (UCSC version
danRer5)
Full genome sequences for Danio rerio (UCSC version danRer5)
Full masked genome sequences for Danio rerio (UCSC version
danRer6)
Full genome sequences for Danio rerio (UCSC version danRer6)
Full masked genome sequences for Danio rerio (UCSC version
danRer7)
Full genome sequences for Danio rerio (UCSC version danRer7)
Full masked genome sequences for Gasterosteus aculeatus (UCSC
version gasAcu1)
Full genome sequences for Gasterosteus aculeatus (UCSC version
gasAcu1)
Full masked genome sequences for Gallus gallus (UCSC version
galGal3)
Full genome sequences for Gallus gallus (UCSC version galGal3)
Full masked genome sequences for Gallus gallus (UCSC version
galGal4)
Full genome sequences for Gallus gallus (UCSC version galGal4)
Full genome sequences for Homo sapiens (GRCh38)
Full masked genome sequences for Homo sapiens (UCSC version
hg17)
Full genome sequences for Homo sapiens (UCSC version hg17)
Full masked genome sequences for Homo sapiens (UCSC version
hg18)
Full genome sequences for Homo sapiens (UCSC version hg18)
Full masked genome sequences for Homo sapiens (UCSC version
hg19)
Full genome sequences for Homo sapiens (UCSC version hg19)
Full masked genome sequences for Macaca mulatta (UCSC version
rheMac2)
Full genome sequences for Macaca mulatta (UCSC version rheMac2)
Full masked genome sequences for Macaca mulatta (UCSC version
rheMac3)
Full genome sequences for Macaca mulatta (UCSC version rheMac3)
Full masked genome sequences for Mus musculus (UCSC version
mm10)
Full genome sequences for Mus musculus (UCSC version mm10)
Full masked genome sequences for Mus musculus (UCSC version mm8)
Full genome sequences for Mus musculus (UCSC version mm8)
Full masked genome sequences for Mus musculus (UCSC version mm9)
Full genome sequences for Mus musculus (UCSC version mm9)
Full masked genome sequences for Pan troglodytes (UCSC version
panTro2)
Full genome sequences for Pan troglodytes (UCSC version panTro2)
Full masked genome sequences for Pan troglodytes (UCSC version
panTro3)
Full genome sequences for Pan troglodytes (UCSC version panTro3)
Full masked genome sequences for Rattus norvegicus (UCSC version
rn4)
Full genome sequences for Rattus norvegicus (UCSC version rn4)
Full masked genome sequences for Rattus norvegicus (UCSC version
rn5)
Full genome sequences for Rattus norvegicus (UCSC version rn5)
Saccharomyces cerevisiae (Yeast) full genome (UCSC version
sacCer1)
Full masked genome sequences for Sus scrofa (UCSC version
susScr3)
Full genome sequences for Sus scrofa (UCSC version susScr3)
Full masked genome sequences for Taeniopygia guttata (UCSC
version taeGut1)
Full genome sequences for Taeniopygia guttata (UCSC version
taeGut1)
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
Constraint based modeling in R using metabolic reconstruction
databases.
Chromosmal Aberrations Finder in Expression data
CpG Island Analysis Pipeline for Illumina Methylation Array and
Targeted BS-Seq Data
Annotations for City of Hope CpG Island Analysis Pipeline
Combinatorial Polyfunctionality Analysis of Single Cells
Data to support sexually dimorphic and COPD differential
analysis for gene expression and methylation.
Sexual dimorphic and COPD differential analysis for gene
expression and methylation.
Design of target-specific guide RNAs in CRISPR-Cas9,
genome-editing systems
ChIPseeker for ChIP peak Annotation, Comparison, and
Visualization
An R pipeline for .bed file annotation, comparing GO term
enrichment between gene sets and data visualisation
R package for calling CNV from Illumina 450k methylation
microarrays
Illumina 450K methylation array spatial analysis methods
DMRforPairs: identifying Differentially Methylated Regions
between unique samples using array based methylation profiles
Experimental Design in Differential Abundance analysis
ELBOW - Evaluating foLd change By the lOgit Way
Epistasis Analysis for Quantitative Traits by Functional
Regression Model
Illumina HumanMethylation data on sorted frontal cortex cell
populations
Utilities for manipulating chromosome and other 'seqname'
identifiers
Representation and manipulation of short genomic alignments
Parallel queries distributed by file or by range
Human lymphoblastoid HiC data from Lieberman-Aiden et al. 2009
An R package for computing the number of susceptibility SNPs
Machine learning interface for RNA-Seq data
Data sets for the book 'Modern Statistics for Biology'
Protein Significance Analysis in DDA, SRM and DIA for Label-free
or Label-based Proteomics Experiments
Minimum allele frequency data from the 1000 Genomes project
Minimum allele frequency data from NHLBI ESP
A set of annotation maps describing the entire MeSH
DBI to construct MeSH-related package from sqlite file.
Analysis of Variation in ChIP-seq using Functional PCA
NetPathMiner for Biological Network Construction, Path Mining
and Visualization
Quantitative DNA sequencing for chromosomal aberrations
Identification and Assessment of Single Nucleotide Variants
through Shifts in Non-Consensus Base Call Frequencies
Toolkit for Compound-Protein Interaction in Drug Discovery
A queryable collection of molecular interactions, from many
sources
Rsubread package: high-performance read alignment,
quantification and mutation discovery
PROVEAN/SIFT Predictions for Homo sapiens dbSNP build 137
Software package for transcription factor binding site (TFBS)
analysis
Subclonal copy number and LOH prediction whole genome sequencing
of tumours
Unsupervised Deconvolution of Tumor-Stromal Mixed Expressions
Filtering of coding and non-coding genetic variants
ALS for the Automatic Chemical Exploration of mixtures
Human B-cell transcriptional interactome and normal human B-cell
expression data
Package for high-throughput data processing, outlier detection,
noise removal and dynamic modeling
Manipulation of Codelink microarray data.
RNAseq data simulation, differential expression analysis and
performance comparison of differential expression methods
Colorectal Cancer Gene Expression Analysis
Epigenetic and gene transcription data normalization and
integration with mixture models
functions for genome-wide application of Liquid Association
Combining multitube flow cytometry data by binning
flowCL: Semantic labelling of flow cytometric cell populations
Analyze flow cytometric data using gate information
Mapping cell populations in flow cytometry data for cross-sample
comparisons using the Friedman-Rafsky Test
Matching and meta-clustering in flow cytometry
Genetic Algorithms for Understanding Clonal Heterogeneity and
Ordering
Healthy dataset used by the flowMatch package
Affymetrix huex10 annotation data (chip huex10stprobeset)
Affymetrix huex10 annotation data (chip
huex10sttranscriptcluster)
Affymetrix hugene10 annotation data (chip hugene10stprobeset)
Affymetrix hugene10 annotation data (chip
hugene10sttranscriptcluster)
Affymetrix hugene11 annotation data (chip hugene11stprobeset)
Affymetrix hugene11 annotation data (chip
hugene11sttranscriptcluster)
Integrative clustering of multi-type genomic data
massiR: MicroArray Sample Sex Identifier
Tools for conducting enrichment analysis of MeSH
Single-gene classifiers and outlier-resistant detection of
differential expression for two-group and survival problems.
metaseqR: an R package for the analysis and result reporting of
RNA-Seq gene expression data using multiple statistical
algorithms.
Implementation of the differential equation model described in
"Dynamical modelling of phenotypes in a genome-wide RNAi
live-cell imaging assay"
A metagenomic pipeline for systems biology
Affymetrix moex10 annotation data (chip moex10stprobeset)
Affymetrix moex10 annotation data (chip
moex10sttranscriptcluster)
Affymetrix mogene10 annotation data (chip mogene10stprobeset)
Affymetrix mogene10 annotation data (chip
mogene10sttranscriptcluster)
Affymetrix mogene11 annotation data (chip mogene11stprobeset)
Affymetrix mogene11 annotation data (chip
mogene11sttranscriptcluster)
Permutation approximation methods for gene set enrichment
analysis (non-permutation GSEA)
Mapping table for Anolis carolinensis Gene ID to Mesh
Mapping table for Anopheles gambiae str. PEST Gene ID to Mesh
Mapping table for Ailuropoda melanoleuca Gene ID to Mesh
Mapping table for Apis mellifera Gene ID to Mesh
Mapping table for Anabaena Gene ID to Mesh
Mapping table for Aspergillus nidulans FGSC A4 Gene ID to Mesh
Mapping table for Arabidopsis thaliana Gene ID to Mesh
Mapping table for Agrobacterium Tumefaciens K84 Gene ID to Mesh
Mapping table for Branchiostoma floridae Gene ID to Mesh
Mapping table for Bacillus subtilis subsp. spizizenii str. 168
Gene ID to Mesh
Mapping table for Bacillus subtilis Bsn5 Gene ID to Mesh
Mapping table for Bacillus subtilis subsp. spizizenii str.
RO-NN-1 Gene ID to Mesh
Mapping table for Bacillus subtilis subsp. spizizenii str.
TU-B-10 Gene ID to Mesh
Mapping table for Bacillus subtilis subsp. spizizenii str. W23
Gene ID to Mesh
Mapping table for Bos taurus Gene ID to Mesh
Mapping table for Candida albicans SC5314 Gene ID to Mesh
Mapping table for Caenorhabditis briggsae Gene ID to Mesh
Mapping table for Caenorhabditis elegans Gene ID to Mesh
Mapping table for Canis familiaris Gene ID to Mesh
Mapping table for Ciona intestinalis Gene ID to Mesh
Mapping table for Callithrix jacchus Gene ID to Mesh
Mapping table for Cavia porcellus Gene ID to Mesh
Mapping table for Caenorhabditis remani Gene ID to Mesh
Mapping table for Drosophila ananassae Gene ID to Mesh
Mapping table for Dickeya dadantii 3937 Gene ID to Mesh
Mapping table for Dictyostelium discoideum AX4 Gene ID to Mesh
Mapping table for Drosophila eracta Gene ID to Mesh
Mapping table for Drosophila grimshawi Gene ID to Mesh
Mapping table for Drosophila melanogaster Gene ID to Mesh
Mapping table for Drosophila mojavensis Gene ID to Mesh
Mapping table for Drosophila persimilis Gene ID to Mesh
Mapping table for Danio rerio Gene ID to Mesh
Mapping table for Drosophila sechellia Gene ID to Mesh
Mapping table for Drosophila simulans Gene ID to Mesh
Mapping table for Drosophila virllis Gene ID to Mesh
Mapping table for Drosophila yakuba Gene ID to Mesh
Mapping table for Escherichia coli 536 Gene ID to Mesh
Mapping table for Escherichia coli 55989 Gene ID to Mesh
Mapping table for Escherichia coli APEC 01 Gene ID to Mesh
Mapping table for Escherichia coli B str. REL606 Gene ID to Mesh
Mapping table for Escherichia coli BW2952 Gene ID to Mesh
Mapping table for Esicherichia coli CFT073 Gene ID to Mesh
Mapping table for Escherichia coli E24377A Gene ID to Mesh
Mapping table for Escherichia coli ED1a Gene ID to Mesh
Mapping table for Escherichia coli HS Gene ID to Mesh
Mapping table for Escherichia coli IAI1 Gene ID to Mesh
Mapping table for Escherichia coli IAI39 Gene ID to Mesh
Mapping table for Escherichia coli str K-12 substr. DH10B Gene
ID to Mesh
Mapping table for Escherichia coli str K-12 substr. MG1655 Gene
ID to Mesh
Mapping table for Escherichia coli KO11FL Gene ID to Mesh
Mapping table for Escherichia coli O103:H2 str. 12009 Gene ID to
Mesh
Mapping table for Escherichia coli O111:H- str. 11128 Gene ID to
Mesh
Mapping table for Escherichia coli O127:H6 str. 2348_69 Gene ID
to Mesh
Mapping table for Escherichia coli O157:H7 str. EC4115 Gene ID
to Mesh
Mapping table for Escherichia coli O157:H7 str. EDL933 Gene ID
to Mesh
Mapping table for Escherichia coli O157:H7 Sakai Gene ID to Mesh
Mapping table for Escherichia coli O157:H7 str. TW14359 Gene ID
to Mesh
Mapping table for Escherichia coli O26:H11 str. 11368 Gene ID to
Mesh
Mapping table for Escherichia coli O26:H7 str. CB9615 Gene ID to
Mesh
Mapping table for Escherichia coli S88 Gene ID to Mesh
Mapping table for Escherichia coli SE11 Gene ID to Mesh
Mapping table for Escherichia coli SMS-3-5 Gene ID to Mesh
Mapping table for Escherichia coli UMN026 Gene ID to Mesh
Mapping table for Escherichia coli UTI89 Gene ID to Mesh
Mapping table for Equus caballus Gene ID to Mesh
Mapping table for Gallus gallus Gene ID to Mesh
Mapping table for Glycine max Gene ID to Mesh
Mapping table for Homo sapiens Gene ID to Mesh
Mapping table for Loxodonta africana Gene ID to Mesh
Mapping table for Leishmania major strain Friedlin Gene ID to
Mesh
Mapping table for Monodelphis domestica Gene ID to Mesh
Mapping table for Mesorhizobium Gene ID to Mesh
Mapping table for Meleagris gallopavo Gene ID to Mesh
Mapping table for Miyakogusa Gene ID to Mesh
Mapping table for Macaca mulatta Gene ID to Mesh
Mapping table for Mus musculus Gene ID to Mesh
Mapping table for Medicago truncatula Gene ID to Mesh
Mapping table for Normascus leucogenys Gene ID to Mesh
Mapping table for Ornithorhynchus anatinus Gene ID to Mesh
Mapping table for Oryctolagus cuniculus Gene ID to Mesh
Mapping table for Oreochromis niloticus Gene ID to Mesh
Mapping table for Oryza sativa Japonica Gene ID to Mesh
Mapping table for Pongo abelii Gene ID to Mesh
Mapping table for Pseudomonas aeruginosa LESB58 Gene ID to Mesh
Mapping table for Pseudomonas aeruginosa UCBPP-PA14 Gene ID to
Mesh
Mapping table for Pseudomonas aeruginosa PA7 Gene ID to Mesh
Mapping table for Pseudomonas aeruginosa PAO1 Gene ID to Mesh
Mapping table for Plasmodium falciparum 3D7 Gene ID to Mesh
Mapping table for Pan troglodytes Gene ID to Mesh
Mapping table for Populus trichocarpa Gene ID to Mesh
Mapping table for Rattus norvegicus Gene ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus COL Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus ED98 Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus M013 Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus MRSA252
Gene ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus MSHR1132
Gene ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus MSSA476
Gene ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus MW2 Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus Mu3 Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus Mu50 Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus N315 Gene
ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus Newman
Gene ID to Mesh
Mapping table for Staphylococcus aureus aureus RF122 Gene ID to
Mesh
Mapping table for Staphylococcus aureus subsp. aureus
USA300_FPR3757 Gene ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus
USA300_TCH1516 Gene ID to Mesh
Mapping table for Staphylococcus aureus subsp. aureus VC40 Gene
ID to Mesh
Mapping table for Saccharomyces cerevisiae S288c Gene ID to Mesh
Mapping table for Streptomyces coelicolor A3(2) Gene ID to Mesh
Mapping table for Silkworm Gene ID to Mesh
Mapping table for Schizosaccharomyces pombe 972h- Gene ID to
Mesh
Mapping table for Strongylocentrotus purpuratus Gene ID to Mesh
Mapping table for Sus scrofa Gene ID to Mesh
Mapping table for Synechocystis Gene ID to Mesh
Mapping table for Trypanosoma brucei brucei strain 927_4
GUTat10.1 Gene ID to Mesh
Mapping table for Toxoplasma gondii ME49 Gene ID to Mesh
Mapping table for Taeniopygia guttata Gene ID to Mesh
Mapping table for Vitis vinifera Gene ID to Mesh
Mapping table for Xenopus laevis Gene ID to Mesh
Mapping table for Xenopus tropicalis Gene ID to Mesh
Mapping table for Zea mays Gene ID to Mesh
Platform Design Info for The Manufacturer's Name NuGO_Hs1a520180
Platform Design Info for The Manufacturer's Name NuGO_Mm1a520177
Propagating Uncertainty in Microarray Analysis(including
Affymetrix tranditional 3' arrays and exon arrays and Human
Transcriptome Array 2.0)
Interfaces the tandem protein identification algorithm in R
Affymetrix raex10 annotation data (chip raex10stprobeset)
Affymetrix raex10 annotation data (chip
raex10sttranscriptcluster)
Affymetrix ragene10 annotation data (chip ragene10stprobeset)
Affymetrix ragene10 annotation data (chip
ragene10sttranscriptcluster)
Affymetrix ragene11 annotation data (chip ragene11stprobeset)
Affymetrix ragene11 annotation data (chip
ragene11sttranscriptcluster)
Identify differential APA usage from RNA-seq alignments
R Interface to the ProteomeXchange Repository
A package for variant peptides detection and visualization in
shotgun proteomics.
SiRNA correction for seed mediated off-target effect
light package to plot elegant track layers
Unified Wilcoxon-Mann Whitney Test for testing differential
expression in qPCR data
Virtual Inference of Protein-activity by Enriched Regulon
analysis
Arabidopsis thaliana genome (TAIR version January 22 2004)
Bos taurus genome (UCSC version bosTau3)
Canis lupus familiaris (dog) genome (version canFam2 from UCSC)
Drosophila melanogaster genome (UCSC version dm3)
Gallus gallus genome (UCSC version galGal3)
Homo sapiens genome (NCBI build 36 version 3)
Pan troglodytes (chimp) genome (version panTro2 from UCSC)
infrastructure for genetics of gene expression (c) 2008 VJ Carey
R for genes and sequences, using viennaRNA package (fold)
XDE: a Bayesian hierarchical model for cross-study analysis of differential gene expression
GE CodeLink ADME Rat 16-Assay Bioarray annotation data (chip adme16cod)
Parallelized preprocessing methods for Affymetrix Oligonucleotide Arrays
alternative CDF environments (aka mappings)
Quality assessment and low-level analysis for Illumina BeadArray data
Interface to BioMart databases (e.g. Ensembl, Wormbase and Gramene)
data provided by UCSC for Cd4 raw measures of DnaseI hypersensitivity
GaGa hierarchical model for microarray data analysis
A data package containing annotation data for gahgu133a
A data package containing annotation data for gahgu133b
A data package containing annotation data for gahgu133plus2
A data package containing annotation data for gahgu95av2
A data package containing annotation data for gahgu95b
A data package containing annotation data for gahgu95c
A data package containing annotation data for gahgu95d
A data package containing annotation data for gahgu95e
goProfiles: an R package for the statistical analysis of functional profiles
GE CodeLink UniSet Human I Bioarray (~10 000 human genes) annotation data (chip h10kcod)
GE CodeLink UniSet Human 20k I Bioarray annotation data (chip h20kcod)
GE CodeLink Human Inflammation 16 Bioarray annotation data (chip hi16cod)
Homology information for Saccharomyces cerevisiae from Inparanoid
GE CodeLink Human Whole Genome Bioarray (~55 000 human genes) annotation data (chip hwgcod)
Illumina HumanRef6 annotation data (chip illuminaHumanv1)
Illumina HumanV1 annotation data (chip illuminaHumanv1ProbeID)
Illumina HumanRef8 annotation data (chip illuminaHumanv2)
Illumina HumanV2 annotation data (chip illuminaHumanv2ProbeID)
Illumina HumanV3 annotation data (chip illuminaHumanv3ProbeID)
Illumina MouseV1 annotation data (chip illuminaMousev1ProbeID)
Illumina MouseV1.1 annotation data (chip illuminaMousev1p1ProbeID)
Illumina MouseV2 annotation data (chip illuminaMousev2ProbeID)
Illumina RatV1 annotation data (chip illuminaRatv1ProbeID)
Illumina Human Expression BeadChips (include all versions: from version 1 to 3) annotation data
Illumina Mouse Expression BeadChips (include all versions: from version 1 to 2) annotation data
Illumina Rat Expression BeadChips (include all versions) annotation data
GE CodeLink UniSet Mouse I Bioarray (~10 000 mouse gene targets) annotation data (chip m10kcod)
GE CodeLink UniSet Mouse 20k I Bioarray annotation data (chip m20kcod)
Basic infrastructure for using oligonucleotide microarray reporter sequence information for preprocessing and quality assessment
GE CodeLink Mouse Inflammation 16 Bioarray annotation data (chip mi16cod)
affy and illumina raw data for assessing outlier detector performance
GE CodeLink Mouse Whole Genome Bioarray (~36 000 mouse gene targets) annotation data (chip mwgcod)
This package extends the capabilities of affylmGUI graphical
interface. Affymetrix 3' IVT, gene an exon arrays are actually implemented togheter
with Illumina, GEO matrix series files and tab delimited files.
GE CodeLink UniSet Rat I Bioarray (~10 000 rat gene targets) annotation data (chip r10kcod)
GE CodeLink Rat Inflammation 16 Bioarray annotation data (chip ri16cod)
GE CodeLink Rat Whole Genome Bioarray (~34 000 rat gene targets) annotation data (chip rwgcod)
Methods for Processing and Analysis of Affymetrix Oligonucleotide Arrays
including Exon Arrays and Gene Arrays
Affymetrix expression data quality control and reproducibility analysis
Access the ArrayExpress Microarray Database at EBI and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
Arabidopsis thaliana full genome (TAIR version from January 22, 2004)
Caenorhabditis elegans full genome (UCSC version ce2)
Drosophila melanogaster full genome (UCSC version dm2)
Drosophila melanogaster full genome (UCSC version dm3)
Homo sapiens full genome (UCSC version hg17)
Homo sapiens full genome (UCSC version hg18)
Mus musculus full genome (UCSC version mm8)
Mus musculus full genome (UCSC version mm9)
Rattus norvegicus full genome (UCSC version rn4)
Dimension Reduction for Array CGH Data with Minimal Information Loss.
Low-level containers for storing sets of integer ranges
A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size.
Built-in masks for the Drosophila melanogaster genome (UCSC version dm3)
Local Pooled Error Test for Differential Expression with Paired High-throughput Data
Integrated Analysis of gene expression and copynumber data
Base classes and methods for high-throughput short-read sequencing data.
Broadcast data between R and other bioinformatics programs
Affymetrix Human Gene 1.0-ST Array annotation data (chip hugene10st)
Illumina HumanDASL annotation data (chip illuminaHumanDASLBeadID)
Illumina HumanWGv1 annotation data (chip illuminaHumanv1)
Illumina HumanWGv1 annotation data (chip illuminaHumanv1BeadID)
Illumina HumanWGv2 annotation data (chip illuminaHumanv2)
Illumina HumanWGv3 annotation data (chip illuminaHumanv3)
Illumina HumanWGv3 annotation data (chip illuminaHumanv3BeadID)
Illumina MouseWGv1 annotation data (chip illuminaMousev1)
Illumina HumanWGv1 annotation data (chip Mousev1)
Illumina MouseWGv1.1 annotation data (chip illuminaMousev1p1)
Illumina MouseWGv1.1 annotation data (chip illuminaMousev1p1BeadID)
Illumina HumanWGv2 annotation data (chip illuminaMousev2)
Illumina MouseWGv2 annotation data (chip illuminaMousev2BeadID)
Illumina RatRSv1 annotation data (chip illuminaRatv1)
Illumina RatRSv1 annotation data (chip illuminaRatv1BeadID)
The Iterative Bayesian Model Averaging (BMA) Algorithm For Survival Analysis
Illumina Human Expression BeadChips (include all versions: version 1 to 3) annotation data (chip lumiHumanAll)
Illumina Mouse Expression BeadChips (include all versions: version 1 to 2) annotation data (chip lumiMouseAll)
Illumina Rat Expression BeadChips (include all versions: version 1) annotation data (chip lumiRatAll)
Affymetrix Mouse Gene 1.0-ST Array annotation data (chip mogene10st)
Visualization of high-throughput assays in microtitre plate or chamber slide format
Export plotting files to the xmapBridge for visualisation in X:Map
Processing and Analysis of Affymetrix Oligonucleotide Arrays including
Exon Arrays, Whole Genome Arrays and Plate Arrays
Danio rerio full genome (UCSC version danRer5)
Homo sapiens full genome (UCSC version hg19)
Collection of annotation related methods for mass spectrometry data
Gene selection based on the marginal distributions of gene profiles that characterized by a mixture of three-component multivariate distributions
A transient package to store various Genomic Features
KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor
MicroArray Gene-expression-based Program In Error rate estimation
Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations
Identify differentially expressed genes in microarray time-course data
Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays.
A data package containing annotation data for dName.db
Methods to correct for gene-specific dye bias
Example data for the dyebias package, which implements the GASSCO method.
Tools for extracting information from a FlowJo workspace and working with the data in the flowCore paradigm.
A data package containing annotation data for homolog.db
Affymetrix HT Human Genome U133 Array Plate Set annotation data (chip hthgu133a)
Affymetrix HT Human Genome U133 Array Plate Set annotation data (chip hthgu133b)
Affymetrix Human Gene 1.0-ST Array Revision 4 annotation data (chip hugene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Revision 3 annotation data (chip hugene10sttranscriptcluster)
Illumina Humanv1 annotation data (chip illuminaHumanv1)
Illumina Humanv1 annotation data (chip illuminaHumanv1BeadID)
Illumina Humanv2 annotation data (chip illuminaHumanv2)
Illumina Humanv2 annotation data (chip illuminaHumanv2BeadID)
Illumina Humanv3 annotation data (chip illuminaHumanv3)
Illumina Humanv3 annotation data (chip illuminaHumanv3BeadID)
Illumina Mousev1 annotation data (chip illuminaMousev1)
Illumina Mousev1 annotation data (chip illuminaMousev1BeadID)
Illumina Mousev1p1 annotation data (chip illuminaMousev1p1)
Illumina Mousev1p1 annotation data (chip illuminaMousev1p1BeadID)
Illumina Mousev2 annotation data (chip illuminaMousev2)
Illumina Mousev2 annotation data (chip illuminaMousev2BeadID)
Illumina Ratv1 annotation data (chip illuminaRatv1BeadID)
A data package containing annotation data for int.did.db
A data package containing annotation data for int.domine.db
A data package containing annotation data for int.geneint.db
A data package containing annotation data for int.intact.db
A data package containing annotation data for int.mppi.db
Illumina Human Expression BeadChips (include all versions: version 1 to 2) annotation data (chip lumiHumanAll)
Illumina Rat Expression BeadChips (include all versions: version 1 to 2) annotation data (chip lumiRatAll)
Significant Gene Expression Profile Differences in Time Course Microarray Data
Affymetrix Mouse Gene 1.0-ST Array Revision 4 annotation data (chip mogene10stprobeset)
Affymetrix Mouse Gene 1.0-ST Array Revision 3 annotation data (chip mogene10sttranscriptcluster)
Tools for low-level analysis of oligonucleotide arrays.
A data package containing annotation data for org.Hs.bf.db
A data package containing annotation data for org.Hs.cross.db
A data package containing annotation data for org.Hs.goa.db
A data package containing annotation data for org.Hs.pep.db
A data package containing annotation data for org.Hs.ref.db
A data package containing annotation data for org.Hs.sp.db
A data package containing annotation data for org.HsMm.ortholog.db
A data package containing annotation data for org.Mm.cross.db
A data package containing annotation data for org.Mm.ipi.db
A data package containing annotation data for org.Mm.ref.db
A data package containing annotation data for org.Mm.sp.db
A data package containing annotation data for org.Rn.cross.db
A data package containing annotation data for org.Rn.ipi.db
A data package containing annotation data for org.Rn.ref.db
A data package containing annotation data for org.Rn.sp.db
Data-driven normalization strategies for high-throughput qPCR data.
Reverse engineering of molecular regulatory networks with qp-graphs
R implementation from MAT program to normalize and analyze tiling arrays and ChIP-chip data.
Affymetrix Rat Gene 1.0-ST Array Revision 4 annotation data (chip ragene10stprobeset)
Affymetrix Rat Gene 1.0-ST Array Revision 3 annotation data (chip ragene10sttranscriptcluster)
A data package containing annotation data for sc.bacello.db
A data package containing annotation data for sc.dbsubloc.db
A data package containing annotation data for scop.db
Microarray Spot Segmentation and Gridding for Blocks of Microarray Spots
A data package containing annotation data for sysptm.db
Transcript mapping with high-density oligonucleotide tiling arrays
Processing and Differential Expression Analysis of Agilent microRNA chips
Batch annotation of the peaks identified from either ChIP-seq or ChIP-chip experiments.
Identifying Protein Binding Sites in High-Throughput Sequencing Data
A transient package to store various Genomic Features for Human
A transient package to store various Genomic Features for Mouse
RPA: probe reliability and differential gene expression analysis
Open-source toolkit to analyse data from xCELLigence System (RTCA) by Roche
Data mining of public microarray data through connections to the TranscriptomeBrowser database.
Empirical Bayesian analysis of patterns of differential expression in count data
The ddCt Algorithm for the Analysis of Quantitative Real-Time PCR (qRT-PCR)
The GASSCO method, for correcting for slide-depedent gene-specific dye bias
Testing groups of covariates/features for association with a response variable, with applications to gene set testing
Illumina MouseWGv1 annotation data (chip illuminaMousev1BeadID)
Illumina MouseWGv2 annotation data (chip illuminaMousev2)
Illumina Rat Expression BeadChips (include version: version 1) annotation data (chip lumiRatAll)
Bayesian Piecewise Constant Regression for DNA copy number estimation
Affymetrix Human Gene 1.0-ST Array Revision 4 annotation data (chip mogene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Revision 3 annotation data (chip mogene10sttranscriptcluster)
Classes for high-throughput arrays supported by oligo
Statistical tools and data structures for plate-based flow cytometry
Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM)
Affymetrix Human Gene 1.0-ST Array Revision 4 annotation data (chip ragene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Revision 3 annotation data (chip ragene10sttranscriptcluster)
Spellman et al. (1998) and Pramila/Breeden (2006) yeast cell cycle microarray data
Digital gene expresion analysis based on the negative binomial distribution
ChIP-seq data of ORC-binding sites in Yeast excerpted from Eaton et al. 2010
software and data for genetics of gene expression (c) 2006 VJ Carey
LMGene Software for Data Transformation and Identification
of Differentially Expressed Genes in Gene Expression Arrays
A correction of the local pooled error (LPE) method to replace the
asymptotic variance adjustment with an unbiased adjustment based on
sample size.
Import aligned BAM file format sequences into R / Bioconductor
Interface to BioMart databases (e.g. Ensembl, COSMIC ,Wormbase and Gramene)
ceuhm3: genotype (HapMap phase III) and expression data for CEPH CEU cohort
High level analysis of Affymetrix exon array data (DEPRECATED please use xmapcore)
Affymetrix Human Gene 1.0-ST Probeset Array Revision 5 annotation data (chip hugene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Transcriptcluster Revision 5 annotation data (chip hugene10sttranscriptcluster)
Affymetrix Human Gene 1.1-ST Probeset Array annotation data (chip hugene11stprobeset)
Affymetrix Human Gene 1.1-ST Array Transcriptcluster annotation data (chip hugene11sttranscriptcluster)
leeBamViews -- multiple yeast RNAseq samples excerpted from Lee 2009
Affymetrix Mouse Gene 1.0-ST Array Probeset Revision 5 annotation data (chip mogene10stprobeset)
Affymetrix Mouse Gene 1.0-ST Array Transcriptcluster Revision 5 annotation data (chip mogene10sttranscriptcluster)
Affymetrix Mouse Gene 1.1-ST Array Probeset annotation data (chip mogene11stprobeset)
Affymetrix Mouse Gene 1.1-ST Array Transcriptcluster annotation data (chip mogene11sttranscriptcluster)
This package extends the capabilities of affylmGUI graphical
interface. Affymetrix 3' IVT, gene an exon arrays are actually
implemented togheter with Illumina, GEO matrix series files and
tab delimited files. Next Generation Sequencing secondary
analysis for ncRNA quantification is also available.
Platform Design Info for NimbleGen 2006-07-18_hg18_refseq_promoter
Platform Design Info for The Manufacturer's Name HT_HG-U133_Plus_PM
Affymetrix Rat Gene 1.0-ST Array Probeset Revision 4 annotation data (chip ragene10stprobeset)
Affymetrix Rat Gene 1.0-ST Array Transcriptcluster Revision 4 annotation data (chip ragene10sttranscriptcluster)
Affymetrix Rat Gene 1.1-ST Array Probeset annotation data (chip ragene11stprobeset)
Affymetrix Rat Gene 1.1-ST Array Transcriptcluster annotation data (chip ragene11sttranscriptcluster)
Takes high-throughput sequencing data and uses it to define segments of the genome to which a high density of reads align.
Visualization of high-throughput assays in microtitre plate or slide format
Transcription factor Inference through Gaussian process Reconstruction of Expression
Core access to the xmap database (installed separately).
Analysis of data from aCGH experiments using parallel computing and ff objects
An R package for analysis of case-control studies in genetic epidemiology
CRImage a package to classify cells and calculate tumour cellularity
Design gene based on both mRNA secondary structure and codon usage bias using Genetic algorithm
Gene set over-representation, enrichment and network analyses for high-throughput screens
Agilent Chips that use Agilent design number 026652 annotation data (chip HsAgilentDesign026652)
A graphical user interface to conduct a dose-response analysis of microarray data
Agilent Chips that use Agilent design number 026655 annotation data (chip MmAgilentDesign026655)
Predict gene network using an Ordinary Differential Equation (ODE) based method
A package for importing and analyzing data from Roche's Genome Sequencer System.
R interface to the MAPPER database of transcription factor binding sites
Agilent Chips that use Agilent design number 028282 annotation data (chip RnAgilentDesign028282)
Classes and methods for high-throughput short-read sequencing data.
Methods to Find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape
The GASSCO method for correcting for slide-dependent gene-specific dye bias
Affymetrix E. coli Genome 2.0 Array annotation data (chip ecoli2)
Affymetrix Human Gene 1.0-ST Probeset Array Revision 6 annotation data (chip hugene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Transcriptcluster Revision 6 annotation data (chip hugene10sttranscriptcluster)
Bayesian Hierarchical Modeling of ChIP-seq Data Through Hidden Ising Models
Illumina HumanWGv4 annotation data (chip illuminaHumanv4)
Illumina HumanWGv4 annotation data (chip illuminaHumanv4BeadID)
Identifying Loci of Enhanced Significance in Tiling Microarray Data
Illumina Human Expression BeadChips (include all versions: version 1 to 4) annotation data (chip lumiHumanAll)
BeadArray Specific Methods for Illumina Methylation and Expression Microarrays
Affymetrix Mouse Gene 1.0-ST Array Probeset Revision 6 annotation data (chip mogene10stprobeset)
Affymetrix Mouse Gene 1.0-ST Array Transcriptcluster Revision 6 annotation data (chip mogene10sttranscriptcluster)
Example data for the mosaics package, which implements MOSAiCS, a statistical framework to analyze one-sample or two-sample ChIP-seq data
Affymetrix Rat Gene 1.0-ST Array Probeset Revision 5 annotation data (chip ragene10stprobeset)
Affymetrix Rat Gene 1.0-ST Array Transcriptcluster Revision 5 annotation data (chip ragene10sttranscriptcluster)
Methods for identifying small RNA loci from high-throughput sequencing data
Microarray QA and statistical data analysis for Applied Biosystems
Genome Survey Microrarray (AB1700) gene expression data.
Isotopic peak pattern deconvolution for Protein Mass Spectrometry by template matching
Mapping of Signalling Networks through Synthetic Genetic Interaction Analysis by RNAi
Rsubread: a super fast, sensitive and accurate read aligner for mapping next-generation sequencing reads
A fast scatterplot smoother suitable for microarray normalization
ANalysis Of Translational Activity  (ANOTA).
Gene expression dataset published by Schmidt et al. [2008] (MAINZ).
Genexpression dataset published by van't Veer et al. [2002] and van de Vijver et al. [2002] (NKI).
Gene expression dataset published by Desmedt et al. [2007] (TRANSBIG).
Gene expression dataset published by Sotiriou et al. [2007] (UNT).
Gene expression datasets published by Wang et al. [2005] and Minn et al. [2007] (VDX).
resources for genetics of gene expression based on Cheung et al 2010
statistical analysis and visulization of functional profiles for genes and gene clusters
flowPlots: analysis plots and data class for gated flow cytometry data
A data package containing a flowJo xml workspace and associated fcs
files for testing the flowWorkspace package.
GAIA: An R package for genomic analysis of significant chromosomal aberrations.
Relevant Functions for Gene Expression Analysis, Especially in Breast Cancer.
Provides classes similar to ExpressionSet for copy number analysis
Affymetrix Human Gene 1.0-ST Probeset Array Revision 7 annotation data (chip hugene10stprobeset)
Affymetrix Human Gene 1.0-ST Array Transcriptcluster Revision 7 annotation data (chip hugene10sttranscriptcluster)
Affymetrix Human Gene 1.1-ST Array Probeset Revision 3 annotation data (chip hugene11stprobeset)
Affymetrix Human Gene 1.1-ST Array Transcriptcluster Revision 3 annotation data (chip hugene11sttranscriptcluster)
Illumina HumanWGDASLv3 annotation data (chip illuminaHumanWGDASLv3)
Illumina HumanHT12WGDASLv4 annotation data (chip illuminaHumanWGDASLv4)
Affymetrix Mouse Gene 1.0-ST Array Probeset Revision 7 annotation data (chip mogene10stprobeset)
Affymetrix Mouse Gene 1.0-ST Array Transcriptcluster Revision 7 annotation data (chip mogene10sttranscriptcluster)
Affymetrix Mouse Gene 1.1-ST Array Probeset Revision 3 annotation data (chip mogene11stprobeset)
Affymetrix Mouse Gene 1.1-ST Array Transcriptcluster Revision 3 annotation data (chip mogene11sttranscriptcluster)
MOSAiCS (MOdel-based one and two Sample Analysis and Inference for ChIP-Seq)
Platform Design Info for The Manufacturer's Name Plasmodium_Anopheles
Tools to test correlation between gene expression and phenotype.
Affymetrix Rat Gene 1.0-ST Array Probeset Revision 6 annotation data (chip ragene10stprobeset)
Affymetrix Rat Gene 1.0-ST Array Transcriptcluster Revision 6 annotation data (chip ragene10sttranscriptcluster)
Affymetrix Rat Gene 1.1-ST Array Probeset Revision 3 annotation data (chip ragene11stprobeset)
Affymetrix Rat Gene 1.1-ST Array Transcriptcluster Revision 3 annotation data (chip ragene11sttranscriptcluster)
Estimation of per-position bias in high-throughput sequencing data
The package contains BioGRID interactions for various organisms in a simple format
A normalization method for Copy Number Aberration in cancer
samples.
software and data for genetics of gene expression (c) 2006 VJ
Carey
GWASTools: Tools for Genome Wide Association Studies
Data mining of public microarray data through connections to the
TranscriptomeBrowser database.
Annotation package for the Celegans_UCSC_ce6_ensGene_TxDb object
Annotation package for the Dmelanogaster_UCSC_dm3_ensGene_TxDb
object
Annotation package for the Hsapiens_UCSC_hg18_knownGene_TxDb
object
Annotation package for the Hsapiens_UCSC_hg19_knownGene_TxDb
object
Annotation package for the Mmusculus_UCSC_mm9_knownGene_TxDb
object
Annotation package for the Rnorvegicus_UCSC_rn4_ensGene_TxDb
object
Annotation package for the Scerevisiae_UCSC_sacCer2_ensGene_TxDb
object
Annotation package for the Scerevisiae_UCSC_sacCer2_sgdGene_TxDb
object
cummeRbund: The finishing touch on your Tuxedo workflow.
Analysis, exploration, manipulation, and visualization of
Cufflinks HTS data.
Detection of CNV in exome/targeted sequencing data
Analysis of differential abundance taking sample variation into
account
Association Studies for multiple SNPs and multiple traits using
Generalized Structured Equation Models
Full genome sequences for Mustela putorius furo (UCSC version
musFur1)
Code for using BridgeDb identifier mapping framework from within
R
Statistical analysis for the Colony Formation Assay
COSNet: Cost-Senstitive network for node label prediction
A framework for two-class classification problems, with
applications to differential variability and differential
distribution testing.
CoRegNet : reconstruction and integrated analysis of
co-regulatory networks
a package for checking high-throughput genomic data redundancy
in meta-analysis
Image processing and analysis toolbox for R
Bayesian analysis for identifying gene or isoform expression
changes in ordered RNA-seq experiments
Seamless navigation through combined results of set-based and
network-based enrichment analysis
Functional Gene Networks derived from biological enrichment
analyses
Visualise microarray and RNAseq data using gene ontology
annotations
Condensed, overlapped plotting of genomic data tracks
Distributed computing by file or by range
R package for handling genomic interaction data
Representation and manipulation of genomic tuples
Statistical Inference about the Mean Matrix and the Covariance
Matrices in High-Dimensional Transposable Data (HDTD)
Single-cell RNA-Seq for differentiating human skeletal muscle
myoblasts (HSMM)
Human IMR90 Fibroblast HiC data from Dixon et al. 2012
Plots data (continuous/discrete) along chromosomal ideogram
BS-seq data of H1 and IMR90 cell line excerpted from Lister et
al. 2009
Identifies differentially methylated regions across testing
groups.
Statistical Analysis of Metabolomic Data
Package containing functions for ASE analysis using
Meta-analysis Based Allele-Specific Expression Detection
Model-based analysis of DNA methylation data
MEIGO - MEtaheuristics for bIoinformatics Global Optimization
Marker Gene Finder in Microarray gene expression data
Estimation of the amplicon methylation pattern distribution from
bisulphite sequencing data.
Utilities for Exploration and Assessment of Confidence of LC-MSn
Proteomics Identifications.
Example {M}ouse {U}niversal {G}enotyping {A}rray data for genome
reconstruction and quantitative trait locus mapping.
DBI to construct MeSH-related package from sqlite file
Metab: An R Package for a High-Throughput Analysis of
Metabolomics Data Generated by GC-MS.
Visual and interactive quality control of large Illumina 450k
data sets
MethylMix: Identifying methylation driven cancer genes.
MoPS - Model-based Periodicity Screening
Testing multiple biological mediators simultaneously
Subset of BAM files of human tumor and pooled normal sequencing
data (Zhao et al. 2014) for the NGScopy package
NGScopy: Detection of copy number variations in next generation
sequencing
Shape-based Analysis of Variation in ChIP-Seq using Functional
PCA
Simulation of cancer progresion with order restrictions
Manipulating and exploring protein and proteomics data
Add-on to DESeq to improve p-values and q-values
Peptide Annotation and Data Visualization using Gviz
An RRBS data set with 12 samples and 10,000 simulated DMRs.
Inference on agreement between ordered lists
Remove Unwanted Variation from RNA-Seq Data
Gender data for the RUVnormalize package
RUV for normalization of expression array data
R Normalization and Inference of Time Series data
Quality Control Tool for High-Throughput Sequencing Data
Binary alignment (BAM), FASTA, variant call (BCF), and tabix
file import
Prediction, quantification and visualization of alternative
transcript events from RNA-seq data
Parallel computing toolset for relatedness and principal
component analysis of SNP data
SNP locations for Homo sapiens (dbSNP Build 141)
STrand-specific ANnotation of genomic data
Classes and methods for multi-omics data integration
Information Accretion-based Function Predictor Evaluation
Check a gene signature's classification performance against
random signatures, permuted data, and known signatures.
Subclonal copy number and LOH prediction from whole genome
sequencing of tumours
Package for Topology-based Pathway Analysis of RNASeq data
SummarizedExperiment for RNA-Seq in airway smooth muscle cells,
by Himes et al PLoS One 2014
Quality metrics report for microarray data sets
Flexible, isoform-level differential expression analysis
Package for the preprocessing and analysis of the Illumina
microarrays on the detector (bead) level.
cn.FARMS - factor analysis for copy number estimation
cosmiq - COmbining Single Masses Into Quantities
Detection of subclonal SNVs in deep sequencing data.
Processed BigWigs from BrainSpan for examples
Annotation-agnostic differential expression analysis of RNA-seq
data at base-pair resolution
Assess Differential Gene Expression Experiments with ERCC
Controls
exome-based anlaysis of MeRIP-Seq data: peak calling and
differential analysis
Annotation for the copy number alteration association and
enrichment analyses with facopy
Feature-based association and gene-set enrichment for copy
number alteration analysis in cancer
SummarizedExperiment for time course RNA-Seq of fission yeast in
response to stress, by Leong et al., Nat Commun 2014.
Analyze flow cytometric data using histogram information
Semantic labelling of flow cytometric cell populations
Tools to analyze in vivo microscopy imaging data focused on
tracking flowing blood cells.
Detection of focal aberrations in DNA copy number data
Gene set Enrichment analysis Extended to Contingency Cubes
genefilter: methods for filtering genes from high-throughput
experiments
Functions for annotating GRanges objects.
Functions to process LM-PCR reads from 454/Illumina data.
Base package for enabling powerful shiny web displays of
Bioconductor objects
Kernel-Based Analysis Of Biological Sequences
Metabolomic Quantitative Trait Locus Mapping for 1H NMR data
A package to run mixture models for truncated metabolomics data
with normal or lognormal distributions.
An R package for the analysis and result reporting of RNA-Seq
data by combining multiple statistical algorithms.
Base resolution DNA methylation data analysis
miRNAtap: microRNA Targets - Aggregated Predictions
Analysis tools for single-cell expression experiments.
Healthy and moderate to severe diarrhea 16S expression data
Affymetrix mta10 annotation data (chip mta10stprobeset)
Affymetrix mta10 annotation data (chip mta10sttranscriptcluster)
Multivariate and directional gene set testing
parser for netCDF, mzXML, mzData and mzML and mzIdentML files
(mass spectrometry data)
A package for visualizing complex biological network
Comprehensive analysis of transciptome data
Mapping table for Anolis carolinensis Gene ID to MeSH
Mapping table for Anopheles gambiae str. PEST Gene ID to MeSH
Mapping table for Ailuropoda melanoleuca Gene ID to MeSH
Mapping table for Apis mellifera Gene ID to MeSH
Mapping table for Filamentos cyanobacteria Gene ID to MeSH
Mapping table for Aspergillus nidulans FGSC A4 Gene ID to MeSH
Mapping table for Arabidopsis thaliana Gene ID to MeSH
Mapping table for Agrobacterium Tumefaciens K84 Gene ID to MeSH
Mapping table for Branchiostoma floridae Gene ID to MeSH
Mapping table for Bacillus subtilis subsp. spizizenii str. 168
Gene ID to MeSH
Mapping table for Bacillus subtilis Bsn5 Gene ID to MeSH
Mapping table for Bacillus subtilis subsp. spizizenii str.
RO-NN-1 Gene ID to MeSH
Mapping table for Bacillus subtilis subsp. spizizenii str.
TU-B-10 Gene ID to MeSH
Mapping table for Bacillus subtilis subsp. spizizenii str. W23
Gene ID to MeSH
Mapping table for Bos taurus Gene ID to MeSH
Mapping table for Candida albicans SC5314 Gene ID to MeSH
Mapping table for Caenorhabditis briggsae Gene ID to MeSH
Mapping table for Caenorhabditis elegans Gene ID to MeSH
Mapping table for Canis familiaris Gene ID to MeSH
Mapping table for Ciona intestinalis Gene ID to MeSH
Mapping table for Callithrix jacchus Gene ID to MeSH
Mapping table for Cavia porcellus Gene ID to MeSH
Mapping table for Caenorhabditis remani Gene ID to MeSH
Mapping table for Drosophila ananassae Gene ID to MeSH
Mapping table for Dickeya dadantii 3937 Gene ID to MeSH
Mapping table for Dictyostelium discoideum AX4 Gene ID to MeSH
Mapping table for Drosophila eracta Gene ID to MeSH
Mapping table for Drosophila grimshawi Gene ID to MeSH
Mapping table for Drosophila melanogaster Gene ID to MeSH
Mapping table for Drosophila mojavensis Gene ID to MeSH
Mapping table for Drosophila persimilis Gene ID to MeSH
Mapping table for Danio rerio Gene ID to MeSH
Mapping table for Drosophila sechellia Gene ID to MeSH
Mapping table for Drosophila simulans Gene ID to MeSH
Mapping table for Drosophila virllis Gene ID to MeSH
Mapping table for Drosophila yakuba Gene ID to MeSH
Mapping table for Escherichia coli 536 Gene ID to MeSH
Mapping table for Escherichia coli 55989 Gene ID to MeSH
Mapping table for Escherichia coli APEC 01 Gene ID to MeSH
Mapping table for Escherichia coli B str. REL606 Gene ID to MeSH
Mapping table for Escherichia coli BW2952 Gene ID to MeSH
Mapping table for Esicherichia coli CFT073 Gene ID to MeSH
Mapping table for Escherichia coli E24377A Gene ID to MeSH
Mapping table for Escherichia coli ED1a Gene ID to MeSH
Mapping table for Escherichia coli HS Gene ID to MeSH
Mapping table for Escherichia coli IAI1 Gene ID to MeSH
Mapping table for Escherichia coli IAI39 Gene ID to MeSH
Mapping table for Escherichia coli str K-12 substr. DH10B Gene
ID to MeSH
Mapping table for Escherichia coli str K-12 substr. MG1655 Gene
ID to MeSH
Mapping table for Escherichia coli KO11FL Gene ID to MeSH
Mapping table for Escherichia coli O103:H2 str. 12009 Gene ID to
MeSH
Mapping table for Escherichia coli O111:H- str. 11128 Gene ID to
MeSH
Mapping table for Escherichia coli O127:H6 str. 2348_69 Gene ID
to MeSH
Mapping table for Escherichia coli O157:H7 str. EC4115 Gene ID
to MeSH
Mapping table for Escherichia coli O157:H7 str. EDL933 Gene ID
to MeSH
Mapping table for Escherichia coli O157:H7 Sakai Gene ID to MeSH
Mapping table for Escherichia coli O157:H7 str. TW14359 Gene ID
to MeSH
Mapping table for Escherichia coli O26:H11 str. 11368 Gene ID to
MeSH
Mapping table for Escherichia coli O26:H7 str. CB9615 Gene ID to
MeSH
Mapping table for Escherichia coli S88 Gene ID to MeSH
Mapping table for Escherichia coli SE11 Gene ID to MeSH
Mapping table for Escherichia coli SMS-3-5 Gene ID to MeSH
Mapping table for Escherichia coli UMN026 Gene ID to MeSH
Mapping table for Escherichia coli UTI89 Gene ID to MeSH
Mapping table for Equus caballus Gene ID to MeSH
Mapping table for Gallus gallus Gene ID to MeSH
Mapping table for Glycine max Gene ID to MeSH
Mapping table for Homo sapiens Gene ID to MeSH
Mapping table for Loxodonta africana Gene ID to MeSH
Mapping table for Leishmania major strain Friedlin Gene ID to
MeSH
Mapping table for Monodelphis domestica Gene ID to MeSH
Mapping table for Meleagris gallopavo Gene ID to MeSH
Mapping table for Lotus japonicus Gene ID to MeSH
Mapping table for Macaca mulatta Gene ID to MeSH
Mapping table for Mus musculus Gene ID to MeSH
Mapping table for Medicago truncatula Gene ID to MeSH
Mapping table for Normascus leucogenys Gene ID to MeSH
Mapping table for Ornithorhynchus anatinus Gene ID to MeSH
Mapping table for Oryctolagus cuniculus Gene ID to MeSH
Mapping table for Oreochromis niloticus Gene ID to MeSH
Mapping table for Oryza sativa Japonica Gene ID to MeSH
Mapping table for Pongo abelii Gene ID to MeSH
Mapping table for Pseudomonas aeruginosa LESB58 Gene ID to MeSH
Mapping table for Pseudomonas aeruginosa UCBPP-PA14 Gene ID to
MeSH
Mapping table for Pseudomonas aeruginosa PA7 Gene ID to MeSH
Mapping table for Pseudomonas aeruginosa PAO1 Gene ID to MeSH
Mapping table for Plasmodium falciparum 3D7 Gene ID to MeSH
Mapping table for Pan troglodytes Gene ID to MeSH
Mapping table for Populus trichocarpa Gene ID to MeSH
Mapping table for Rattus norvegicus Gene ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus COL Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus ED98 Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus M013 Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus MRSA252
Gene ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus MSHR1132
Gene ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus MSSA476
Gene ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus MW2 Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus Mu3 Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus Mu50 Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus N315 Gene
ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus Newman
Gene ID to MeSH
Mapping table for Staphylococcus aureus aureus RF122 Gene ID to
MeSH
Mapping table for Staphylococcus aureus subsp. aureus
USA300_FPR3757 Gene ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus
USA300_TCH1516 Gene ID to MeSH
Mapping table for Staphylococcus aureus subsp. aureus VC40 Gene
ID to MeSH
Mapping table for Saccharomyces cerevisiae S288c Gene ID to MeSH
Mapping table for Streptomyces coelicolor A3(2) Gene ID to MeSH
Mapping table for Bombyx mori Gene ID to MeSH
Mapping table for Schizosaccharomyces pombe 972h- Gene ID to
MeSH
Mapping table for Strongylocentrotus purpuratus Gene ID to MeSH
Mapping table for Sus scrofa Gene ID to MeSH
Mapping table for Cyanobacteria Gene ID to MeSH
Mapping table for Trypanosoma brucei brucei strain 927_4
GUTat10.1 Gene ID to MeSH
Mapping table for Toxoplasma gondii ME49 Gene ID to MeSH
Mapping table for Taeniopygia guttata Gene ID to MeSH
Mapping table for Vitis vinifera Gene ID to MeSH
Mapping table for Xenopus laevis Gene ID to MeSH
Mapping table for Xenopus tropicalis Gene ID to MeSH
Mapping table for Zea mays Gene ID to MeSH
Interactive visualisation of spatial proteomics data
PaxtoolsR: Access Pathways from Multiple Databases through
BioPAX and Pathway Commons
Platform Design Info for NimbleGen
081229_hg18_promoter_medip_hx1
Platform Design Info for NimbleGen
2006-07-18_mm8_refseq_promoter
Platform Design Info for NimbleGen
2006-10-31_rn34_refseq_promoter
Platform Design Info for Affymetrix ATH1-121501
Platform Design Info for Affymetrix Barley1
Platform Design Info for Affymetrix Bovine
Platform Design Info for Affymetrix Bsubtilis
Platform Design Info for Affymetrix Canine_2
Platform Design Info for Affymetrix Canine
Platform Design Info for Affymetrix Celegans
Platform Design Info for Affymetrix Chicken
Platform Design Info for Affymetrix ChiGene-1_0-st
Platform Design Info for Affymetrix ChiGene-1_1-st
Platform Design Info for Affymetrix CHOGene-2_0-st
Platform Design Info for Affymetrix CHOGene-2_1-st
Platform Design Info for Affymetrix Citrus
Platform Design Info for Affymetrix Cotton
Platform Design Info for Affymetrix DroGene-1_0-st
Platform Design Info for Affymetrix DroGene-1_1-st
Platform Design Info for Affymetrix DrosGenome1
Platform Design Info for Affymetrix Drosophila_2
Platform Design Info for Affymetrix E_coli_2
Platform Design Info for Affymetrix Ecoli_ASv2
Platform Design Info for Affymetrix Ecoli
Platform Design Info for Affymetrix EleGene-1_0-st
Platform Design Info for Affymetrix EleGene-1_1-st
Platform Design Info for Affymetrix FinGene-1_0-st
Platform Design Info for Affymetrix FinGene-1_1-st
Platform Design Info for Affymetrix GuiGene-1_0-st
Platform Design Info for Affymetrix GuiGene-1_1-st
Platform Design Info for Affymetrix HC_G110
Platform Design Info for Affymetrix HG-Focus
Platform Design Info for Affymetrix HG-U133_Plus_2
Platform Design Info for Affymetrix HG-U133A_2
Platform Design Info for Affymetrix HG-U133A_tag
Platform Design Info for Affymetrix HG-U133A
Platform Design Info for Affymetrix HG-U133B
Platform Design Info for Affymetrix HG-U219
Platform Design Info for Affymetrix HG_U95A
Platform Design Info for Affymetrix HG_U95Av2
Platform Design Info for Affymetrix HG_U95B
Platform Design Info for Affymetrix HG_U95C
Platform Design Info for Affymetrix HG_U95D
Platform Design Info for Affymetrix HG_U95E
Platform Design Info for Affymetrix HT_HG-U133_Plus_PM
Platform Design Info for Affymetrix HT_HG-U133A
Platform Design Info for Affymetrix HT_MG-430A
Platform Design Info for Affymetrix HTA-2_0
Platform Design Info for Affymetrix Hu6800
Platform Design Info for Affymetrix Maize
Platform Design Info for Affymetrix MarGene-1_0-st
Platform Design Info for Affymetrix MarGene-1_1-st
Platform Design Info for Affymetrix MedGene-1_0-st
Platform Design Info for Affymetrix MedGene-1_1-st
Platform Design Info for Affymetrix Medicago
Platform Design Info for Affymetrix MG_U74A
Platform Design Info for Affymetrix MG_U74Av2
Platform Design Info for Affymetrix MG_U74B
Platform Design Info for Affymetrix MG_U74Bv2
Platform Design Info for Affymetrix MG_U74C
Platform Design Info for Affymetrix MG_U74Cv2
Platform Design Info for Affymetrix miRNA-1_0
Platform Design Info for Affymetrix miRNA-4_0
Platform Design Info for Affymetrix MOE430A
Platform Design Info for Affymetrix MOE430B
Platform Design Info for Affymetrix Mouse430_2
Platform Design Info for Affymetrix Mouse430A_2
Platform Design Info for Affymetrix Mu11KsubA
Platform Design Info for Affymetrix Mu11KsubB
Platform Design Info for Affymetrix Pae_G1a
Platform Design Info for Affymetrix Plasmodium_Anopheles
Platform Design Info for Affymetrix Poplar
Platform Design Info for Affymetrix Porcine
Platform Design Info for Affymetrix RabGene-1_0-st
Platform Design Info for Affymetrix RabGene-1_1-st
Platform Design Info for Affymetrix RAE230A
Platform Design Info for Affymetrix RAE230B
Platform Design Info for Affymetrix Rat230_2
Platform Design Info for Affymetrix RCnGene-1_0-st
Platform Design Info for Affymetrix RG_U34A
Platform Design Info for Affymetrix RG_U34B
Platform Design Info for Affymetrix RG_U34C
Platform Design Info for Affymetrix Rhesus
Platform Design Info for Affymetrix Rice
Platform Design Info for Affymetrix RJpGene-1_0-st
Platform Design Info for Affymetrix RN_U34
Platform Design Info for Affymetrix RUSGene-1_0-st
Platform Design Info for Affymetrix RUSGene-1_1-st
Platform Design Info for Affymetrix S_aureus
Platform Design Info for Affymetrix Soybean
Platform Design Info for Affymetrix SoyGene-1_0-st
Platform Design Info for Affymetrix Sugar_Cane
Platform Design Info for Affymetrix Tomato
Platform Design Info for Affymetrix U133_X3P
Platform Design Info for Affymetrix Vitis_Vinifera
Platform Design Info for Affymetrix wheat
Platform Design Info for Affymetrix X_laevis_2
Platform Design Info for Affymetrix X_tropicalis
Platform Design Info for Affymetrix Xenopus_laevis
Platform Design Info for Affymetrix Yeast_2
Platform Design Info for Affymetrix YG_S98
Platform Design Info for Affymetrix Zebrafish
Statistical analysis of peptide microarrays
Parsing pepXML files and filter based on peptide FDR.
Generating SAM file for PSMs in shotgun proteomics data.
An R package for proteomics data quality control
Estimation of genetic and molecular regulatory networks from
high-throughput genomics data
A test for when to use quantile normalization
Rhythmicity Analysis Incorporating Non-parametric Methods
Generate HTML reports for exploring a set of regions
Analysis of sequencing data from ribosome profiling experiments.
Analysis of nucleotide, sequence and quality content on fastq
files.
RNA-seq data generated from SEQC (MAQC-III) study
An interactive tool for visualizing NGS signals and sequence
motif densities along genomic features using average plots and
heatmaps.
Example dataset of input data for shinyMethyl
Interactive visualization for Illumina's 450k methylation arrays
Simulator for Collections of Independent Genomic Data Sets
specL - Prepare Peptide Spectrum Matches for Use in Targeted
Proteomics
A small RNA-seq visualizer and analysis toolkit
Utilities to train and validate classifiers based on pair
switching using the K-Top-Scoring-Pair (KTSP) algorithm.
systemPipeR: NGS workflow and report generation environment
A bioconductor package with minimalist design for plotting
elegant track layers
Zebrafish RNA-Seq Experimental Data from Ferreira et al. (2014)
ABSSeq: a new RNA-Seq analysis method based on modelling
absolute expression differences
AIMS : Absolute Assignment of Breast Cancer Intrinsic Molecular
Subtype
Affymetrix data files (CEL, CDF, CHP, EXP, PGF, PSI) for testing
A framework for sharing interactive data and plots from R
through the web.
Client to access AnnotationHub resources
Correct for batch effects in DNA methylation data
Full genome sequences for Bos taurus (UCSC version bosTau8)
Full genome sequences for Drosophila melanogaster (UCSC version
dm6)
1000genomes Reference Genome Sequence (hs37d5)
Full masked genome sequences for Homo sapiens (UCSC version
hg38)
Full genome sequences for Homo sapiens (UCSC version hg38)
Full genome sequences for Macaca fascicularis
(Macaca_fascicularis_5.0)
Full genome sequences for Rattus norvegicus (UCSC version rn6)
High-performing routines for the randomization of a bipartite
graph (or a binary event matrix) and directed signed graph
preserving degree distribution (or marginal totals).
BrowserVizDemo: How to subclass BrowserViz
BrowserViz: interactive R/browser graphics using websockets and
JSON
A method to elucidate purity and clonality in tumors using copy
number ratio and allele frequency
Perform Chromosomal Ancestry Differences (CAnD) Analyses
A Normalization and Copy Number Variation Detection Method for
Whole Exome Sequencing
Cost Sensitive Network for node label prediction on graphs with
highly unbalanced labelings
Datasets and workflows for the Cardinal mass spectrometry
imaging package
A mass spectrometry imaging toolbox for statistical analysis
Copy number information from targeted sequencing using
off-target reads
Experimental data and documented source code for the paper "A
Map of Directional Genetic Interactions in a Metazoan Cell"
Data preprocessing and quality control for Illumina
HumanMethylation450 BeadChip
Identification of Functional Epigenetic Modules
FISHalyseR a package for automated FISH quantification
Using self-organizing maps for visualization and interpretation
of cytometry data
GENetic EStimation and Inference in Structured samples
(GENESIS): Statistical methods for analyzing genetic data from
samples with population structure and/or relatedness
Representation and Manipulation of Genomic Tuples
Grey Lists -- Mask Artefact Regions Based on ChIP Inputs
HLA Genotype Imputation with Attribute Bagging
Identification of genetic Variants affecting Alternative
Splicing
Identification of Novel alternative PolyAdenylation Sites (PAS)
LEA: an R package for Landscape and Ecological Association
Studies
LowMACA - Low frequency Mutation Analysis via Consensus
Alignment
Base Functions and Classes for MS-based Proteomics
Minimum allele frequency data from 1000 Genomes Phase 1
Minimum allele frequency data from 1000 Genomes Phase 3
Obtain total affinity and occupancies for binding site matrices
on a given sequence
MeSH(Medical Subject Headings) Semantic Similarity Measures
Perform Methylation Analysis on Next Generation Sequencing Data
MethylAid-summarized data on 2800 Illumina 450k array samples
NGScopy: Detection of Copy Number Variations in Next Generation
Sequencing sequencing
Quality metrics and data processing methods for NanoString mRNA
gene expression data
High-quality circular visualization of omics data
Classification and Feature Selection for 'Omics' Datasets
Software to enable the smooth interfacing of different database
packages
S4 generic functions for Bioconductor proteomics infrastructure
Identification of mutational clusters in protein quaternary
structures.
3CPET: Finding Co-factor Complexes in Chia-PET experiment using
a Hierarchical Dirichlet Process
A package for importing and analyzing data from Roche's Genome
Sequencer System
RBM: a R package for microarray and RNA-Seq data analysis
Display and manipulate graphs in Cytoscape.js
An R package for analysis of massive parallel sequencing based
RNA structure probing data
Removal of unwanted variation for gene-gene correlations and
related analysis
HTSlib high-throughput sequencing library as an R package
Sequence data from chromosome 4 of a small-cell lung tumor
Splice event detection and quantification from RNA-seq data
GC-SIM-MS data processing and alaysis tool
Parallel Computing Toolset for Relatedness and Principal
Component Analysis of SNP Data
SNP locations for Homo sapiens (dbSNP Build 142)
SNP locations for Homo sapiens (dbSNP Build 144)
SVM2CRM: support vector machine for cis-regulatory elements
detections
An example dataset for use with the SVM2CRM package
Check a gene signature's prognostic performance against random
signatures, known signatures, and permuted data/metadata
Analyze thermal proteome profiling (TPP) experiments
TRONCO, a package for TRanslational ONCOlogy
Whole Exome Sequencing (WES) of chromosome 22 401st to 500th
exon from the 1000 Genomes (1KG) Project by the Washington
University Genome Sequencing Center (WUGSC).
Extra SNP locations for Homo sapiens (dbSNP Build 141)
Extra SNP locations for Homo sapiens (dbSNP Build 144)
Functions useful for those doing repetitive analyses with
Affymetrix GeneChips
Light-weight Methods for Normalization and Visualization of
Microarray Data using Only Basic R Data Types
Extract read count signals from bam files
Bayesian Inference of Regulatory Influence on Expression (biRte)
Analyze, manage and store bisulfite sequencing data.
A Graphical User Interface for accessing and modeling the Cancer
Genomics Data of MSKCC.
chromDraw an R package for visualization of linear and circular
karyotypes.
coMET: visualisation of regional epigenome-wide association scan
(EWAS) results and DNA co-methylation patterns.
Enhanced copy-number variation analysis using Illumina 450k
methylation arrays
Gene set analysis methods for SNP association p-values that lie
in genes in given gene sets
Curated breast gene expression data with survival and treatment
information
cytofkit: an integrated analysis pipeline for mass cytometry
data
Inference of Genetic Variants Driving Cellular Phenotypes
Count summarization and normalization for RNA-Seq data
Extraction of Differential Gene Expression
Utilities to create and use an Ensembl based annotation database
Variance stabilization in flow cytometry (and microarrays)
Tools to analyze in vivo microscopy imaging data focused on
tracking flowing blood cells
gQTLBase: infrastructure for eQTL, mQTL and similar studies
gQTLstats: computationally efficient analysis for eQTL and
allied studies
R Interface to CoreArray Genomic Data Structure (GDS) Files
Experimental data for showing functionalities of the genomation
package
Summary, annotation and visualization of genomic data
summarized experiment with expression data from GEUVADIS
demonstrate storage discipline for eQTL enumerations
a phylogenetic tree viewer for different types of tree
annotations
An R interface to the GMAP/GSNAP/GSTRUCT suite
Synthetic Expression Data for Gene Regulatory Network Inference
Gene Set data for pathway analysis in mouse
Affymetrix hta20 annotation data (chip hta20stprobeset)
Affymetrix hta20 annotation data (chip hta20sttranscriptcluster)
immunoClust - Automated Pipeline for Population Detection in
Flow Cytometry
Gene expression data for testing of the package mAPKL.
A Hybrid Feature Selection method for gene expression data
Multiple omics data integration and gene set analysis
ncdfFlow: A package that provides HDF5 based storage for flow
cytometry data.
Benchmarking of several gene network inference methods
A bioconductor package for high-dimensional exploration of
biological network heterogeneity
Preprocessing tools for oligonucleotide arrays
A graphical interface designed to facilitate analysis of
microarrays and miRNA/RNA-seq data on laptops
support for parallelized estimation of GLMs/GEEs
Platform Design Info for Affymetrix MTA-1_0
Platform Design Info for Affymetrix RTA-1_0
UCSC phastCons conservation scores for hg19
UCSC phastCons conservation scores for hg38
Generating SAM file for PSMs in shotgun proteomics data
Pathway-based data integration of omics data
rcellminerData: Molecular Profiles and Drug Response for the
NCI-60 Cell Lines
rcellminer: Molecular Profiles and Drug Response for the NCI-60
Cell Lines
Association analysis of genomic regions based on permutation
tests
Gene Set Enrichment / Projection Displays
a novel tool for functional gene-set (or termed as pathway)
analysis of next-generation sequencing data
Visualising oligonucleotide patterns and motif occurrences
across a set of sorted sequences
An interactive tool for visualizing NGS signals and sequence
motif densities along genomic features using average plots and
heatmaps
Gene signature generation for functionally validated signaling
pathways
similaRpeak: Metrics to estimate a level of similarity between
two ChIP-Seq profiles
R package for the statistical assessment of cell state
hierarchies from single-cell RNA-seq data
Visualize Intensities Produced by Illumina's Human Methylation
450k BeadChip
Visualise ChIP-seq, MNase-seq and motif occurrence as aggregate
plots Summarised Over Grouped Genomic Intervals
Comparison between multiple levels of gene expression
Sensitive and highly resolved identification of RNA-protein
interaction sites in PAR-CLIP data
Averaged gene expression in human brain regions from Allen Brain
Atlas
Gene expression enrichment in human brain regions
Absolute Copy Number Estimation from Low-coverage Whole Genome
Sequencing
ADAM: Activity and Diversity Analysis Module
Activity and Diversity Analysis Module Graphical User Interface
Analysis Of Differential Abundance Taking Sample Variation Into
Account
Regulatory Network Inference and Driver Gene Evaluation using
Integrative Multi-Omics Analysis and Penalized Regression
Active modules for multilayer weighted gene co-expression
networks: a continuous optimization approach
Affinity Network Fusion for Complex Patient Clustering
A toolkit for APA analysis using RNA-seq data
Ancestry Specific Allele Frequency Estimation
Example of 1D NMR spectra data for ASICS package
ASpedia-FI: Functional Interaction Analysis of Alternative
Splicing Events
Analysis of alternative splicing using RNA-Seq
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq
data (e.g. identify cells with specific gene signatures)
An R package for fast computing for adaptively weighted fisher's
method
A Functional Approach To Impute Genetically Regulated Expression
Computational inference of epimutation rates and spectra from
high-throughput DNA methylation data in plants
A framework for sharing interactive data and plots from R
through the web
Analysis of Copy Number Variation in Single-Cell-Sequencing Data
Manipulation of SQLite-based annotations in Bioconductor
Facilities for Filtering Bioconductor Annotation Resources
Tools for building SQLite-based annotation data packages
Transform public data resources into Bioconductor Data
Structures
Annotated variants on the chromosome 21, human genome 19,
Ashkenazim Trio son sample
Data and Files for the AssessORF Package
Assess Gene Predictions Using Proteomics and Evolutionary
Conservation
Automated parameter selection for untargeted metabolomics data
processing
BANDITS: Bayesian ANalysis of DIfferenTial Splicing
Bayesian Analysis of Single-Cell Sequencing data
BBCAnalyzer: an R/Bioconductor package for visualizing base
counts
Meta-analysis for the metagenomic read counts data from
different cohorts
BEARscc (Bayesian ERCC Assesstment of Robustness of Single Cell
Clusters)
Correction of batch effects in DNA methylation data
BLMA: A package for bi-level meta-analysis
Asparagus officinalis (Garden asparagus) full genome (NCBI
version Aspof.V1)
Full genome sequences for Bos taurus (UCSC version bosTau9)
Cicer arietinum (Chickpea) full genome (NCBI version ASM33114v1)
Full genome sequences for Caenorhabditis elegans (UCSC version
ce11)
Full genome sequences for Callithrix jacchus (UCSC version
calJac3)
Full genome sequences for Danio rerio (UCSC version danRer10)
Full genome sequences for Danio rerio (UCSC version danRer11)
Full genome sequences for Gallus gallus (UCSC version galGal5)
Full genome sequences for Gallus gallus (UCSC version galGal6)
Full genome sequences for Monodelphis domestica (UCSC version
monDom5)
Full genome sequences for Macaca mulatta (UCSC version rheMac10)
Full genome sequences for Macaca mulatta (UCSC version rheMac8)
Full genome sequences for Pan troglodytes (UCSC version panTro5)
Full genome sequences for Pan troglodytes (UCSC version panTro6)
Full genome sequences for Sus scrofa (UCSC version susScr11)
Full genome sequences for Taeniopygia guttata (UCSC version
taeGut2)
Full reference nuclear genome sequences for Vitis vinifera
subsp. vinifera PN40024 (IGGP version 12Xv0)
Full reference nuclear genome sequences for Vitis vinifera
subsp. vinifera PN40024 (IGGP version 12Xv2)
Full reference nuclear genome sequences for Vitis vinifera
subsp. vinifera PN40024 (IGGP version 8X)
Software infrastructure for efficient representation of full
genomes and their SNPs
Computational pipeline for computing probability of modification
from structure probing experiment data
Batch Effects Correction with Unknown Subtypes
BaalChIP: Bayesian analysis of allele-specific transcription
factor binding in cancer genomes
BadRegionFinder: an R/Bioconductor package for identifying
regions with bad coverage
BayesKnockdown: Posterior Probabilities for Edges from Knockdown
Data
Annotation and gene expression data retrieval from Bgee
database. TopAnat, an anatomical entities Enrichment Analysis
tool for UBERON ontology.
Constraint based modeling in R using metabolic reconstruction
databases
High-performing routines for the randomization of a bipartite
graph (or a binary event matrix), undirected and directed
signed graph preserving degree distribution (or marginal
totals)
BioMM: Biological-informed Multi-stage Machine learning
framework for phenotype prediction using omics data
Detect tissue heterogeneity in expression profiles with gene
sets
BioTIP: An R package for characterization of Biological
Tipping-Point
S4 generic functions used in Bioconductor
Nearest Neighbor Detection for Bioconductor Packages
Bioconductor components for general cancer genomics
Collection of simple tools for learning about Bioc Packages
Singular Value Decomposition for Bioconductor Packages
interface to python sklearn via Rstudio reticulate
Set the appropriate version of Bioconductor packages
Tools to aid the development of Bioconductor Workflow packages
Efficient manipulation of biological strings
"Drug-perturbation-based stratification of blood cancer" by
Dietrich S, Oles M, Lu J et al. - experimental data and
complete analysis
BubbleTree: an intuitive visualization to elucidate tumoral
aneuploidy and clonality in somatic mosaicism using next
generation sequencing data
Analysis of Cap Analysis of Gene Expression (CAGE) data using
Bioconductor
Convex Analysis of Mixtures for Tissue Heterogeneity
Characterization
PROMISE analysis with Canonical Correlation for Two Forms of
High Dimensional Genetic Data
CHARGE: CHromosome Assessment in R from Gene Expression data
Fast and accurate scRNA-seq cell type identification
CHRONOS: A time-varying method for microRNA-mediated sub-pathway
enrichment analysis
Methylation data of primary CLL samples in PACE project
Reliable CNV detection in targeted sequencing applications
Summarization and expression/phenotype association of CNV ranges
Identifies false positives of CNV calling tools by using SNV
calls
Package for CTDbase data query, visualization and downstream
analysis
An R interface for computational modeling of tumor progression
Cancer subtypes identification, validation and visualization
based on multiple genomic data sets
Construct Benchmarks for Single Cell Analysis Methods
Pre-processed data for use with the CellMapper package
Predict genes expressed selectively in specific cell types
Training of boolean logic models of signalling networks using
prior knowledge networks and perturbation data
Tool for Evaluation of Cell Identity from Transcription Profiles
Reconstruction, visualization and analysis of branching
trajectories
Chip Analysis Methylation Pipeline for Illumina
HumanMethylation450 and EPIC
Quality Control Pipeline for ChIP-Seq Data
Quantitative comparison of multiple ChIP-seq datasets
ChIP-Seq data scaling according to spike-in control
ChIPanalyser: Predicting Transcription Factor Binding Sites
Example data for the ChIPexoQual package, which implements a
quality control pipeline for ChIP-exo data
Batch annotation of the peaks identified from either ChIP-seq,
ChIP-chip experiments or any experiments resulted in large
number of chromosome ranges
CHiCAGO: Capture Hi-C Analysis of Genomic Organization
A framework for cross-validated classification problems, with
applications to differential variability and differential
distribution testing
Clustering of MS2 Spectra for Metabolite Identification
Judging Quality of Clustering Methods using Mutual Information
The ClusterSignificance package provides tools to assess if
class clusters in dimensionality reduced data representations
have a separation different from permuted data
Copy Neutral Illumina Methylation Arrays
Create Copy-Number Plots using karyoploteR functionality
Clustering and Visualizing RNA-Seq Expression Data using Grade
of Membership Models
Tools for counting and visualising mutations in a target
location
An Interactive Consensus Clustering Framework for Multi-platform
Data Analysis
Robust prediction of clinical outcomes using cytometry data
without cell gating
A GatingML Interface for Cross Platform Cytometry Data Sharing
Tools for the Differential Analysis of Proteins Abundance with R
Data accompanying the DAPAR and Prostar packages
DChIPRep - Analysis of chromatin modification ChIP-Seq data with
replication
Tools for curating, analyzing, and manipulating biological
sequences
A tool for differential expression analysis and DEGs based
investigation to complex diseases by bi-clustering analysis
Differential gene expression data formats converter
Differential Enrichment analysis of Proteomics data
Differential Expressed Windows Based on Negative Binomial
Distribution
a tool to perform statistical analysis of differential protein
expression for quantitative proteomics data.
DEsingle for detecting three types of differential expression in
single-cell RNA-seq data
DEsubs: an R package for flexible identification of
differentially expressed subpathways using RNA-seq expression
experiments
Differentially Methylated Cytosines via a Bayesian Functional
Approach
Differentially Methylated CpG using Hidden Markov Model
Detection of Differentially Methylated Regions
Methylation array and sequencing spatial analysis methods
A Tool for Optimizing Combinations of DNA Barcodes Used in
Multiplexed Experiments on Next Generation Sequencing Platforms
A tool for creating and analysing DNA barcodes used in Next
Generation Sequencing multiplexing experiments
High-throughput prediction of DNA shape features
Differential transcript usage and tuQTL analyses with
Dirichlet-multinomial model in RNA-seq
Dispersion shrinkage for sequencing data
Data Mining for RNA-seq data: normalization, feature selection
and classification
Cell type-specific deconvolution of heterogeneous tumor samples
with two or three components using expression data from RNAseq
or microarray platforms
A unified framework for working transparently with on-disk and
in-memory array-like datasets
Delayed operation on DataFrame using standard DataFrame metaphor
Functions that Apply to Rows and Columns of 'DelayedMatrix'
Objects
Determination of essential phenotypic elements of clusters in
high-dimensional entities
Differential Binding Analysis of ChIP-Seq Peak Data
DiffLogo: A comparative visualisation of biooligomer motifs
A dynamic visualization tool of multi-level data
Interactive Workflow for Discovering Rhythmicity in Biological
Data
Identification and Annotation of Protein Hotspot Residues
A DownStream Chemo-Proteomics Analysis Pipeline
Utilities for Handling Single-Cell Droplet Data
Data, Clustering Results and Visualization Functions From Duò et
al (2018)
Exon Based Strategy for Expression Analysis of genes
Extending guilt by association by degree
Ensemble of Gene Set Enrichment Analyses
Gene set collections for the EGSEA package
Inferring Regulatory Element Landscapes and Transcription Factor
Networks Using Cancer Methylomes
Data preprocessing and quality control for Illumina
HumanMethylation450 and MethylationEPIC BeadChip
Uses Brown's method to combine p-values from dependent tests
Publication-ready volcano plots with enhanced colouring and
labeling
Provides access to pathogen annotation resources available on
EuPathDB databases
An effective identification of alternative splicing events using
junction arrays and RNA-Seq data
ExCluster robustly detects differentially expressed exons
between two conditions of RNA-seq data, requiring at least two
independent biological replicates per condition
Client to access ExperimentHub resources
Download datasets from EMBL-EBI Expression Atlas
Fast Correlation Based Filter for Feature Selection
Interpretation and enrichment for metabolomics data
Human Functional Interactions (FIs) for splineTimeR package
Pedigree Analysis and Familial Aggregation
A Shiny Application for Quality Control, Filtering and Trimming
of FASTQ Files
Confidence estimation for intra-chromosomal contact maps
Gene expression data from breast cancer cells under FGFR2
signalling perturbation
Master regulators of FGFR2 signalling and breast cancer risk
Illumina EPIC data on immunomagnetic sorted peripheral adult
blood cells
Illumina 450k data on sorted cord blood cells
Illumina 450k/EPIC data on FACS and MACS umbilical blood cells
Illumina HumanMethylation data on sorted cord blood cell
populations
Package for Fold-specific GO Terms Recognition
Clustering and Alignment of ChIP-Seq peaks based on their shapes
A Bioconductor package for accessing GA4GH API data servers
Shiny application for interacting with GA4GH-based data servers
GAPGOM (novel Gene Annotation Prediction and other GO Metrics)
GARS: Genetic Algorithm for the identification of Robust Subsets
of variables in high-dimensional and challenging datasets
Prediction of gestational age with Illumina HumanMethylation450
data
GCSscore: an R package for microarray analysis for
Affymetrix/Thermo Fisher arrays
GDCRNATools: an R/Bioconductor package for integrative analysis
of lncRNA, mRNA, and miRNA data in GDC
Representing GDS files as array-like objects
GEM: fast association study for the interplay of Gene,
Environment and Methylation
GEne Network Inference with Ensemble of trees
Genotype Imputed Gene Set Enrichment Analysis
Gene set collections for the GIGSEA package
GISPA: Method for Gene Integrated Set Profile Analysis
GWAS-based Mendelian Randomization and Path Analyses
Constructing gene regulatory networks from expression data
through functional module inference
Find the most characteristic gene ontology terms for groups of
human genes
Tools for manipulating GO and microarrays
Calculate growth-rate inhibition (GR) metrics
Better prediction by use of co-data: Adaptive group-regularized
ridge regression
Fast Permutation-based Gene Set Analysis
GEO accession data GSE62944 as a SummarizedExperiment
Projection-based Gating Strategy Optimization for Flow and Mass
Cytometry
Candidate gene prioritization based on convergent evidence
Detection of clonally exclusive gene or pathway pairs in a
cohort of cancer patients
Tools for Testing Gene-Gene Interaction at the Gene Level
GeneNetworkBuilder: a bioconductor package for building
regulatory network using ChIP-chip/ChIP-seq data and Gene
Expression Data
Tools for spliced gene structure manipulation and analysis
A GAM based framework for analysis of ChIP-Seq data
Species and taxonomy ID look up tables used by GenomeInfoDb
Utilities for manipulating chromosome names, including modifying
them to follow a particular naming style
Conveniently import and query gene models
Delineate outstanding genomic zones of differential gene
activity
Infrastructure to work with genomewide position-specific scores
Build and access GenomicState objects for use with derfinder
tools from sources like Gencode
Data package with transcript expression and bi-allelic genotypes
from the GEUVADIS project
R Package for Processing High Content Screening data
Global test for groups of variables via model comparisons
Combines WGCNA and xCell readouts with bayesian network
learrning to generate a Gene-Module Immune-Cell network (GMIC)
Accessing The Datasets Of The Human Cell Atlas in R/Bioconductor
Collection of high-dimensional cytometry benchmark datasets in
Bioconductor object formats
Detection of cell-type-specific risk-CpG sites in epigenome-wide
association studies
16S rRNA Sequencing Data from the Human Microbiome Project
16s rRNA sequencing data from the Human Microbiome Project 2
Retrieve and analyze data from the Human Protein Atlas
The removal of batch effects from datasets using a PCA and
constrained optimisation based technique
Processed Harmonized TCGA Data of Five Selected Cancer Types
Data for the HelloRanges tutorial vignette
Framework for Storing and Accessing Hi-C Data Through HDF Files
HiCcompare: Joint normalization and comparative analysis of
multiple Hi-C datasets
Conducting statistical inference on comparing the mutational
exposures of mutational signatures by using hierarchical latent
Dirichlet allocation
GEO accession GSE64985 and ArrayExpress accession E-MTAB-62 as
ExpressionSet objects
Tools to work with a Compendium of 181000 human transcriptome
sequencing studies
Integrative analysis of Multi-omics data for Alternative
Splicing
Interlog protein network reconstruction by Mapping and Mining
ANalysis
Interactive Visualization of Integrated Differential Expression
and Differential Network Analysis for Biomarker Candidate
Selection Package
Modeling RNA synthesis, processing and degradation with RNA-seq
data
Quality Assessment Tools for Oxford Nanopore MinION data
Automated Optimization of XCMS Data Processing parameters
Foundation of integer range manipulation in Bioconductor
Integrative Statistics of alleLe Dependent Expression
Differential gene usage in immune repertoires
Annotation for Illumina's EPIC methylation arrays
Manifest for Illumina's EPIC methylation arrays
A graphical interface for the metagene package
A Thin Wrapper around the ImmuneSpace Database
Differential expression analysis of longitudinal count data sets
Detection of DE genes in time series data using impulse models
InPAS: a bioconductor package for the identification of novel
alternative PolyAdenylation Sites (PAS) using RNA-seq data
Search for correlation between epigenetic signals and gene
expression in TADs
R Interface with InterMine-Powered Databases
Base Classes for Storing Genomic Interaction Data
Predicting Targets for Drosophila Intragenic miRNAs
Graphical User Interface for IsoCorrectoR
Correction for natural isotope abundance and tracer purity in MS
and MS/MS data from stable isotope labeling experiments
Identify, Annotate and Visualize Alternative Splicing and
Isoform Switches with Functional Consequences from both short-
and long-read RNA-seq data.
Example Junction Count data for use with JunctionSeq
JunctionSeq: A Utility for Detection of Differential Exon and
Splice-Junction Usage in RNA-Seq data
Visualize all edges within a KEGG pathway and overlay LINCS data
KinSwingR: network-based kinase activity prediction
A R package to extract knowledge by using RNA-seq raw files
co-expression of lincRNAs and protein-coding genes
Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy
Sequences
Locus overlap analysis for enrichment of genomic ranges
An annotation package for the LRBaseDb object
Differential expression analysis and model fitting for
single-cell RNA-seq data
LinkHD: a versatile framework to explore and integrate
heterogeneous data
Linear model and normality based normalization and
transformation method (Linnorm)
EDLogo Plots Featuring String Logos and Adaptive Scaling of
Position-Weight Matrices
Analyze high-throughput sequencing of T and B cell receptors
Monte Carlo Reference-based Consensus Clustering
Identifies differentially methylated regions across testing
groups
Michaelis-Menten Modelling of Dropouts in single-cell RNASeq
Model based analysis for paired-end data
Fast treatment of MACSQuantify FACS data
Mosaic Aneuploidy Detection and Quantification using Massive
Parallel Sequencing Data
Integrative Analysis Pipeline for Pooled CRISPR Functional
Genetic Screens
Model-based Analysis of Single Cell Transcriptomics
Massive correlating biclusters for gene expression data and
associated methods
Detection of de novo deletion in targeted sequencing trios
A Minimum Enclosing Ball (MEB) method to detect differential
expression genes for RNA-seq data
Example data for MEDIPS and QSEA packages
Massive and Integrative Gene Set Analysis
Methylation-Based Inference of Regulatory Activity
Machine Learning Interface for RNA-Seq Data
Mutation Mapping Analysis Pipeline for Pooled RNA-Seq
Meta-analysis Methods with Uniform Pipeline for Heterogeneity in
Microbiome Studies
MODA: MOdule Differential Analysis for weighted gene
co-expression network
Data package for Multi-Omics Factor Analysis (MOFA)
Estimation of the amplicon methylation pattern distribution from
bisulphite sequencing data
Utilities for Exploration and Assessment of Confidence of LC-MSn
Proteomics Identifications
Base Functions and Classes for Mass Spectrometry and Proteomics
Datasets of published biological studies with DDA or SRM
experiments
Longitudinal system suitability monitoring and quality control
for proteomic experiments
A graphical user interface for MSstatsQC package
Simulation tool for optimal design of high-dimensional MS-based
proteomics experiment
Protein Significance Analysis in shotgun mass spectrometry-based
proteomic experiments with tandem mass tag (TMT) labeling
Supporting Data for the MTseeker Package
Bioconductor Tools for Human Mitochondrial Variant Analysis
MWASTools: an integrated pipeline to perform metabolome-wide
association studies
Minor allele frequency data from 1000 Genomes Phase 1 for GRCh38
Minor allele frequency data from 1000 Genomes Phase 1 for hs37d5
Minor allele frequency data from 1000 Genomes Phase 3 for GRCh38
Minor allele frequency data from 1000 Genomes Phase 3 for hs37d5
Minor allele frequency data from NHLBI ESP for GRCh38
Minor allele frequency data from NHLBI ESP for hs37d5
Minor allele frequency data from ExAC release 1.0 for GRCh38
Minor allele frequency data from ExAC release 1.0 for hs37d5
Minor allele frequency data from ExAC release 1.0 subset of
nonTCGA exomes for GRCh38
Minor allele frequency data from ExAC release 1.0 subset of
nonTCGA exomes for hs37d5
Minor allele frequency data from TOPMed for hg19
Minor allele frequency data from TOPMed for hg38
Minor allele frequency data from gnomAD release 2.1 for GRCh38
Minor allele frequency data from gnomAD release 2.1 for hs37d5
Minor allele frequency data from gnomAD release 3.0 for GRCh38
Minor allele frequency data from gnomAD exomes release 2.1 for
GRCh38
Minor allele frequency data from gnomAD exomes release 2.1 for
hs37d5
Perform a maximum contrast projection of 3D images along the
z-dimension into 2D
Bayesian clustering and imputationa of single cell methylomes
Integrative network analysis of omics data
Navigating mass spectral similarity in high-resolution MS/MS
metabolomics data
Network-based prioritization of putative metabolite IDs
Inferring metabolic networks from untargeted high-resolution
mass spectrometry data
MetaCyto: A package for meta-analysis of cytometry data
Gene Expression Meta-analysis Visualization Tool
MetaboSignal: a network-based approach to overlay and explore
metabolic and signaling KEGG pathways
Differential methylation anlsysis for bisulfite sequencing data
A DNA methylation classifier tool for the identification of
pediatric brain tumor subtypes
MethylAid-summarized data for 2800 Illumina 450k array samples
and 2620 EPIC array samples
Visual and interactive quality control of large Illumina DNA
Methylation array data sets
MethylMix: Identifying methylation driven cancer genes
A Package for De Novo CNV Detection in Case-Parent Trios
Implementation of Biostrings to work with nucleotide sequences
containing modified nucleotides
Identify oncogenes and tumor suppressor genes from omics data
Single-Cell Transcriptomics Data across Mouse Gastrulation and
Early Organogenesis
Software for the integration of multi-omics experiments in
Bioconductor
Implementation of MultiDataSet and ResultSet
Comprehensive genome-wide analysis of mutational processes
Negative Binomial Additive Model for RNA-Seq Data
Negative Binomial Models to detect Differential Splicing
Differential Expression Analysis of NanoString nCounter Data
Shape-based Analysis of Variation in ChIP-seq using Functional
PCA
NestLink an R data package to guide through Engineered Peptide
Barcodes for In-Depth Analyzes of Binding Protein Ensembles
Evaluation of normalization methods and calculation of
differential expression analysis statistics
An R package for quantitative integration and analysis of
multiple omics assays from heterogeneous samples
Optimal p-value weighting with independent information
OVESEG-test to detect tissue/cell-specific markers
OnassisJavaLibs, java libraries to run conceptmapper and
semantic similarity
OnASSIs Ontology Annotation and Semantic SImilarity software
A tool to identify potentially oncogenic genes
Forward Genetic Simulation of Cancer Progression with Epistasis
dplyr-based Access to Bioconductor Annotation Resources
Oscope - A statistical pipeline for identifying oscillatory
genes in unsynchronized single cell RNA-seq
PAIRADISE: Paired analysis of differential isoform expression
PCAtools: Everything Principal Components Analysis
Permutation filtration for microbiome data
An package for identification of novel peptides by customized
database derived from RNA-Seq
Projection onto Orthogonal Space Testing for High Dimensional
Data
Inferring functionally related proteins using protein
interaction networks
Proteomics Standard Initiative Common QUery InterfaCe
Generate PanViz visualisations from your pangenome
Data package with transcript expression obtained with kallisto
from pasilla knock-down RNA-Seq data from Brooks et al.
Prediction of pathway-related protein-protein interaction
networks
PathoStat Statistical Microbiome Analysis Package
An R Package for Unbiased Splicing Pathway Analysis
Data package for phylogenetic profile analysis using
PhyloProfile tool
Leveraging Genetic Evidence to Prioritise Drug Targets at the
Gene and Pathway Level
Infers biological signatures from gene expression data
PoTRA: Pathways of Topological Rank Analysis
Power Estimation Tool for RNA-Seq and proteomics data
A Tool to Analyze and Design NGS Based Custom Gene Panels
Prize: an R package for prioritization estimation based on
analytic hierarchy process
Multi-Dataset Model-based Differential Expression Proteomics
Analysis Platform
Transform public proteomics data resources into Bioconductor
Data Structures
P. tricornutum HPLC-ESI-MS Lipid Data from van Creveld et al.
(2015)
Copy number calling and SNV classification using targeted short
read sequencing
Quantitative DNA Sequencing for Chromosomal Aberrations
An R package for qualitative biclustering in support of gene
co-expression analyses
Data employed in the vignette of the QUBIC package
Qtlizer: comprehensive QTL annotation of GWAS results
Computes the Quaternary Dot Product Scoring Statistic for Signed
and Unsigned Causal Graphs
An R package for RNA visualization and analysis
Fit row-column association models with the negative binomial
distribution for the microbiome
Functions to Access and Control Cytoscape
Display and manipulate graphs in cytoscape.js
GenoMetric Query Language for R/Bioconductor
RGMQLlib, java libraries to run GMQL scala API
Rapid Integration of Term Annotation and Network resources
This package contains the annotation and network data sets
R package for RIVER (RNA-Informed Variant Effect on Regulation)
RImmPort: Enabling Ready-for-analysis Immunology Research Data
Bayesian hierarchical model for genome-wide nucleosome
positioning with high-throughput short-read data (MNase-Seq)
RNASeqRData: sample data for RNASeqR software package
demonstration
RNASeqR: an R package for automated two-group RNA-Seq analysis
workflow
Maximum Likelihood Decay Modeling of RNA Degradation Data
Detection of m7G, m3C and D modification by AlkAnilineSeq
Detecting patterns of post-transcriptional modifications using
machine learning
Detection of 2'-O methylations by RiboMethSeq
Detection of post-transcriptional modifications in high
throughput sequencing data
utilities for ROC, with microarray focus
C++ headers and static libraries of Protocol buffers
An RRBS data set with 12 samples and 10,000 simulated DMRs
CNV (Copy-number variation) datasets from The Cancer Genome
Atlas Project
RPPA datasets from The Cancer Genome Atlas Project
Clinical datasets from The Cancer Genome Atlas Project
mRNA datasets from The Cancer Genome Atlas Project
Methylation datasets from The Cancer Genome Atlas Project
miRNASeq datasets from The Cancer Genome Atlas Project
Mutations datasets from The Cancer Genome Atlas Project
Rna-seq datasets from The Cancer Genome Atlas Project
A new tool for exporting TCGA Firehose data
The Cancer Genome Atlas Data Integration
RTN: Reconstruction of Transcriptional regulatory Networks and
analysis of regulons
Analysis of co-regulation and inference of 'dual regulons'
Survival analysis using transcriptional networks inferred by the
RTN package
Computes estimates of the probability of related individuals
sharing a rare variant
Representation of Sparse Experiments and Assays Across Samples
Random walk with restart on multiplex and heterogeneous Networks
A suite for analysis of rare genomic variants in whole genome
sequencing data
An R Wrapper for Bowtie2 and AdapterRemoval
R-based analysis of ChIP-seq And Differential Expression - a
tool for integrating a count-based ChIP-seq analysis with
differential expression summary data
RcisTarget motif databases for human (hg19) - Subset of 4.6k
motifs
RcisTarget: Identify transcription factor binding motifs
enriched on a gene list
Molecular Informatics Toolkit for Compound-Protein Interaction
in Drug Discovery
Wrap Command Tools and Pipelines Using CWL
Companion data package for the ReactomeGSA package
Client for the Reactome Analysis Service for comparative
multi-omics gene set analysis
Standard regression functions in R enabled for parallel
processing over large data-frames
Replicate oriented Visualization of a genomic region
Ribosome Profiling Data Analysis: from BAM to Data
Representation and Interpretation
RNA-Seq multi-mapping Reads Quantification Tool
Subread Sequence Alignment and Counting for R
Foundation of vector-like and list-like containers in
Bioconductor
Scalable Implementation of Generalized mixed models using GDS
files in Phenome-Wide Association Studies
Demo gene expression datasets for SBGNview package
Overlay omics data onto SBGN pathway diagram
SCANVIS - a tool for SCoring, ANnotating and VISualizing splice
junctions
A statistical normalization method and differential expression
analysis for RNA-seq data between different species
Normalization of single cell RNA-seq data
Differential Abundant Analysis for Metabolomics and Proteomics
Data
Systems EPigenomics Inference of Regulatory Activity
SEtools: tools for working with SummarizedExperiment
Splice event prediction and quantification from RNA-seq data
Statistical Inference of Associations between Microbial
Communities And host phenoTypes
Find SNV/Indel differences between two bam files with near
relationship
Statistical Inferences with MeDIP-seq Data (SIMD) to infer the
methylation level for each CpG site
Single-cell Interpretation via Multi-kernel LeaRning (SIMLR)
SISPA: Method for Sample Integrated Set Profile Analysis
Statistical Modelling of AP-MS Data (SMAD)
Significance-based Modules Integrating the Transcriptome and
Epigenome
Additional and more complex example data for the SNPhood package
SNPhood: Investigate, quantify and visualise the epigenomic
neighbourhood of SNPs using NGS data
SNP locations for Homo sapiens (dbSNP Build 149)
SNP locations for Homo sapiens (dbSNP Build 150)
SNP locations for Homo sapiens (dbSNP Build 151)
Sparse Partial Correlations On Gene Expression
Representation of SQL database in DataFrame metaphor
SRGnet: An R package for studying synergistic response to gene
mutations from transcriptomics data
SVAPLSseq-An R package to estimate the hidden factors of
unwanted variability and adjust for them to enable a more
powerful and accurate differential expression analysis based on
RNAseq data
Transform and Filter SWATH Data for Statistical Packages
Scale4C: an R/Bioconductor package for scale-space
transformation of 4C-seq data
A toolkit for performing KNN-based statistics for flow and mass
cytometry data
Data Management of Large-scale Whole-genome Sequence Variant
Calls
A bioconductor package for sample quality check with next
generation sequencing data
Sharing R objects across multiple R processes without memory
duplication
Mutational Signature Estimation for Single Samples
Single Cell Transcriptome Data and Analysis of Mouse mTEC cells
Cluster analysis of Spatial Transcriptomics data
SpectralTAD: Hierarchical TAD detection using spectral
clustering
SpidermiR: An R/Bioconductor package for integrative network
analysis with miRNA data
Implementation of the dot bracket annotations with Biostrings
Variant annotations for structural variants
SubCellBarCode: Integrated workflow for robust mapping and
visualizing whole human spatial proteome
Classes and methods for performing benchmark comparisons
SWATH extended library generation and statistical data analysis
SynMut: Designing Synonymously Mutated Sequences with Different
Genomic Signatures
"TCGAbiolinksGUI: A Graphical User Interface to analyze cancer
molecular and clinical data"
TCGAbiolinks: An R/Bioconductor package for integrative analysis
with GDC data
TCGA utility functions for data management
Single cell dataset from 10x in BUS format
Data from the 10X 1.3 Million Brain Cell Study
Transcription Factors Association Rules Miner
Software Package for Transcription Factor Binding Site (TFBS)
Analysis
Transcription Factor High Accumulation Zones
Time Series Clustering of Gene Expression with Gaussian
Mixed-Effects Models and Smoothing Splines
TNBC.CMS: Prediction of TNBC Consensus Molecular Subtypes
Tools for the analysis of heterogeneous tissues
FDR-controlled analysis of 2D-TPP experiments
TRONCO, an R package for TRanslational ONCOlogy
Promoter identification from large-scale TSS profiling data
Two-Tier Mapper: a clustering tool based on topological data
analysis
10x And SmartSeq2 Data From The Tabula Muris Consortium
TARgeted SEQuencing Experiment Quality Control
A package for the analysis of GC-MS metabolite profiling data
Interactive Visualization for Genomic Features
Topology-based pathway analysis of RNA-seq data
Read density map construction and accession. Visualization of
ChIPSeq and RNASeq data sets
TreeSummarizedExperiment: a S4 Class for Data with Tree
Structures
Breakpoint analysis of time-course expression data
Metadata management for multiomic specification of
transcriptional regulatory networks
Shiny app for canonical and back splicing analysis (i.e.
circular and mRNA analysis)
Identification of cancer cell lines based on their weighted
mutational/ variational fingerprint
Representing on-disk / remote VCF files as array-like objects
A RangedSummarizedExperiment Container for VCF/GDS Data with GDS
Backend
Tools for Exploratory Analysis of Variant Calls
A package for visualization and extract details
ViSEAGO: a Bioconductor package for clustering biological
functions using Gene Ontology and semantic similarity
Wrench normalization for sparse count data
Test for differential expression for RNA-seq data
Multiplexes isobaric mass tagged-based kinetics data for network
analysis
Foundation of external vector representation and manipulation in
Bioconductor
Analysis of patient-derived xenograft (PDX) data
Yet Another Package for Signature Analysis
Reporting and data analysis functionalities for Rep-Seq datasets
of antibody libraries
Artificial Components Detection of Differentially Expressed
Genes
Data-Adaptive Statistics for High-Dimensional Multiple Testing
Data from untargeted MS of modifications to Cys34 of serum
albumin
Processing of adductomic mass spectral datasets
GUI for limma Package with Affymetrix Microarrays
RangedSummarizedExperiment for RNA-Seq in airway smooth muscle
cells, by Himes et al PLoS One 2014
GEO accession data GSE71585 as a SingleCellExperiment
Alternative splicing event annotation for Human (hg19)
Alternative splicing event annotation for Human (hg38)
Automated analysis of CRISPR experiments
An integrated analysis package of miRNA and mRNA expression data
Annotation of Genomic Regions to Genomic Annotations
Generally applicable transcriptome-wide analysis of
translational efficiency using anota2seq
Approximate posterior estimation for GLM coefficients
appreci8R: an R/Bioconductor package for filtering SNVs and
short indels with high sensitivity and high PPV
ARACNe-inferred gene networks from TCGA tumor datasets
Light-Weight Methods for Normalization and Visualization of
Microarray Data using Only Basic R Data Types
Analytical R tools for Mass Spectrometry
Affinity test for identifying regulatory SNPs
Controlling bias and inflation in association studies using the
empirical null distribution
Bayesian ANalysis Of Compositional Covariance
Working with Illumina Basecalling and Demultiplexing input and
output files
Single-cell RNA sequencing data normalization
Fast Sequence Mapping in High-Throughput shRNA and CRISPR
Screens
Compiling Bioconductor to Handle Each Matrix Type
Data and Benchmarking Results from Korthauer and Kimes et al.
(2019)
Big multivariate data plotted interactively
Illumina methylation array analysis for large experiments
An extension of the bigmemory package with added safety,
convenience, and a factor class
Interactive Multi-Omics Cancers Data Visualization and Analysis
Cross-target analysis of small molecule bioactivity
Turn Bioconductor objects into tidy data frames
Interface to BioMart databases (i.e. Ensembl)
An interface package for the BIOM file format
Example experimental microarray data set for the "biotmle" R
package
Targeted Learning with Moderated Statistics for Biomarker
Discovery
Outlier Analysis for pairwise differential comparison
Tools for the preprocessing and analysis of the Illumina
microarrays on the detector (bead) level
Bandwise normalization and batch correction of Hi-C data
Experimental dataset from the rat BodyMap project
Image masks and expression data for use with BrainImageR
Plots and annotation for choosing BrainFlow target probe
sequence
Prediction of intronic splicing branchpoints
Strand-seq data for demonstration purposes
Exposures, Gene Expression and Methylation data for ilustration
purpouses
Identification of candidate causal perturbations from
differential gene expression data
Visualization of multi-dimentional cancer genomics data
Covariate Assisted Large-scale Multiple testing
A Graphical User Interface for accessing and modeling the Cancer
Genomics Data of MSKCC
Automated functions for comparing various data from
cbioportal.org
Data for Combination Connectivity Mapping (ccmap) Package
Processed scRNA data for celaref Vignette - cell labelling by
reference
Single-cell RNAseq cell cluster labelling by reference
Inference and visualisation of Single-Cell RNA-seq data as a
hierarchical tree structure
Querying annotation data from the high performance Cellbase web
Quality Control for Single-Cell RNA-seq Data
Explores single cell copy number profiles in the context of a
single cell tree
Gene Set Enrichment For ChIP-seq Peak Data
The 'snp.matrix' and 'X.snp.matrix' Classes
chroGPS2: Generation, visualization and differential analysis of
epigenome maps
chromDraw is a R package for drawing the schemes of karyotypes
in the linear and circular fashion.
Global visualization tool of genomic data
ChIP-seq data for Demonstration Purposes
Combinatorial and Differential Chromatin State Analysis for
ChIP-Seq Data
An R package to detect chromatin state switches from epigenomic
data
Precict cis-co-accessibility from single-cell chromatin
accessibility data
circRNAprofiler: An R-Based Computational Framework for the
Downstream Analysis of Circular RNAs
Affymetrix clariomdhuman annotation data (chip
clariomdhumanprobeset)
Affymetrix clariomdhuman annotation data (chip
clariomdhumantranscriptcluster)
Affymetrix clariomshumanht annotation data (chip
clariomshumanhttranscriptcluster)
Affymetrix clariomshuman annotation data (chip
clariomshumantranscriptcluster)
Affymetrix clariomsmouseht annotation data (chip
clariomsmousehttranscriptcluster)
Affymetrix clariomsmouse annotation data (chip
clariomsmousetranscriptcluster)
Affymetrix clariomsratht annotation data (chip
clariomsrathttranscriptcluster)
Affymetrix clariomsrat annotation data (chip
clariomsrattranscriptcluster)
This package classifies putative polyadenylation sites as true
or false/internally oligodT primed
Compare Clusterings for Single-Cell Sequencing
statistical analysis and visualization of functional profiles
for genes and gene clusters
Clustering of high-throughput sequencing data by identifying
co-expression patterns
coMET: visualisation of regional epigenome-wide association scan
(EWAS) results and DNA co-methylation patterns
Codon Usage Analysis and Prediction of Gene Expressivity
Manipulation of Codelink microarray data
coexnet: An R package to build CO-EXpression NETworks from
Microarray Data
A/B compartment inference from ATAC-seq and methylation array
data
RNA-seq analysis using multiple algorithms
Gene expression-based subtype classification for high-grade
serous ovarian cancer
Detection of consensus regions inside a group of experiences
using genomic positions and genomic ranges
Cross-platform consensus analysis of genomic measurements via
interlaboratory testing method
Improves Early Build Genome Assemblies using Strand-Seq Data
Enhanced copy-number variation analysis using Illumina DNA
methylation arrays
Co-Expression Analysis of Sequencing Data
Compare Characteristic Features of Count Data Sets
Empirical Bayes estimate of block diagonal covariance matrices
Multivariate Analysis of Transcriptomic Data
Genotype Calling (CRLMM) and Copy Number Analysis tool for
Affymetrix SNP 5.0 and 6.0 and Illumina arrays
Cross Platform Meta-Analysis of Microarray Data
Clustering of Time Series Gene Expression data
A Curated ChIP-Seq Dataset of MDI-induced Differentiated
Adipocytes (3T3-L1)
A Curated RNA-Seq Dataset of MDI-induced Differentiated
Adipocytes (3T3-L1)
Curated breast cancer gene expression data with survival and
treatment information
Curated Metagenomic Data of the Human Microbiome
Curated Data From The Cancer Genome Atlas (TCGA) as
MultiAssayExperiment Objects
Generate customized protein database from NGS data, with a focus
on RNA-Seq data, for proteomics search
Using Mass Cytometry for Differential Abundance Analyses
cytofast - A quick visualization and analysis tool for CyTOF
data
C++ infrastructure for representing and interacting with the
gated cytometry
Accurate, high-resolution sample inference from amplicon
sequencing data
dagLogo: a bioconductor package for visualizeing conserved amino
acid sequence pattern in groups based on probability theory
Distance-correlation based Gene Set Analysis for longitudinal
gene expression profiles
Deconvolution by Convex Analysis of Mixtures
Interactive Differential Expresion Analysis Browser
Decomposing Heterogeneous Cohorts using Omic Data Profiling
Decomposition of individual tumors into mutational signatures by
signature refitting
Identify Contaminants in Marker-gene and Metagenomics Sequencing
Data
This Package Discovers Meso-scale Chromatin Remodeling from 3C
Data
Annotation-agnostic differential expression analysis of RNA-seq
data at base-pair resolution via the DER Finder approach
Differential discovery in high-dimensional cytometry via
high-resolution clustering
Identifying differential DNA loops from chromatin topology data
Example ChIA-PET Datasets for the diffloop Package
The Discordant Method: A Novel Approach for Differential
Correlation
Divergence: Functionality for assessing omics data by divergence
with respect to a baseline
Detection and inference of differentially methylated regions
from Whole Genome Bisulfite Sequencing
Identify likely duplicate samples from genomic or meta-data
Package to Draw Protein Schematics from Uniprot API output
Assessment of duplication rates in RNA-Seq datasets
Empirical Analysis of Digital Gene Expression Data in R
Engineering Evaluation by Gene Categorization (eegc)
Visualization of Functional Enrichment Result
Utilities to create and use Ensembl-based annotation databases
Determining Epigenetic Heterogeneity from Bisulfite Sequencing
Data
Data Management API for epiviz interactive visualization app
WebSocket server infrastructure for epivizr apps and packages
Run Epiviz Interactive Genomic Data Visualization App within R
An Easy-to-use Systematic pipeline for ATACseq data analysis
Visualizations of expressionSet Bioconductor object
Microarray dataset that can be used as example for 2x2 factorial
designs
Individual-specific changes in the human gut microbiota after
challenge with enterotoxigenic Escherichia coli and subsequent
ciprofloxacin treatment
Cartesian plot and contingency test on 16S Microbial data
functional Canonical Correlation Analysis to evaluate Covariance
between nucleic acid sequencing datasets
f-divergence Cutoff Index for Differential Expression Analysis
in Transcriptomics and Proteomics
fcScan for detecting clusters of coordinates with user defined
options
FCBF-based Co-Expression Networks for Single Cells
Fishpond: differential transcript and gene expression with
inferential replicates
RangedSummarizedExperiment for time course RNA-Seq of fission
yeast in response to stress, by Leong et al., Nat Commun 2014.
UCSC fitCons fitness consequences scores for hg19
Automatic and interactive quality control for flow cytometry
data
Analyze flow cytometer data to determine sample ploidy
Tools for processing of high-dimensional cytometry data
A Toolkit for Flow And Mass Cytometry Data
Annotation and analysis of biological dynamical systems using
flow cytometry
A data package containing two flowJo, one diva xml workspace and
the associated fcs files as well as three GatingSets for
testing the flowWorkspace, openCyto and CytoML packages.
Infrastructure for representing and interacting with gated and
ungated cytometry data sets.
Normalization Procedure for Infinium HumanMethylation450
BeadChip Kit
Suite of Functions for Pooled Crispr Screen QC and Analysis
GWAS Analysis of Regulatory or Functional Information Enrichment
with LD correction
Classify diseases and build associated gene networks using gene
expression profiles
Gene Set Enrichment Analysis Extended to Contingency Cubes
GEMINI: Variational inference approach to infer genetic
interactions from pairwise CRISPR screens
Parsing GenBank files into semantically useful objects
Identification of candidate genes associated with genetic
variation
Optimized Functional Annotation Of ChIP-seq Data
Computation of Gene Expression-Based Signatures in Breast Cancer
Evolutionary and plasticity analysis of orthologous groups
A RangedSummarizedExperiment with methods for copy number
analysis
A tool for quantification of associations between genotypes and
phenotypes in genome wide association studies (GWAS) with
Bayesian inference and statistical learning
Creation and Analysis of Pathway Expression Profiles (PEPs)
demonstrate storage discipline for eQTL enumerations, revised
an R package for visualization of tree and annotation data
Network Centrality Metrics for Elastic-Net Regularized Models
Testing Groups of Covariates/Features for Association with a
Response Variable, with Applications to Gene Set Testing
A tool to use GO Subtrees to Tag and Annotate Genes within a set
Human genome partitioning of dense sequencing data by
identifying haplotype blocks
Generalized correlation analysis and model construction strategy
for metabolome and microbiome
Adaptive penalization in high-dimensional regression and
classification with external covariates using variational Bayes
Greengenes 13.5 16S rRNA Database Annotation Data
Gene Set Enrichment Analysis with Networks
representing and modeling data in the EMBL-EBI GWAS catalog
gwasurvivr: an R package for genome wide survival analysis
Flexible Heatmaps for Functional Genomics and Sequence Features
CellScore Standard Cell Types Expression Dataset [hgu133plus2]
Functions for annotating GRanges objects
Functions to process LM-PCR reads from 454/Illumina data
Measuring the reproducibility of Hi-C data
Asessing statistical significance in predictive GWA studies
utilities for exploration of human metabolome database
Affymetrix hta20 annotation data (chip hta20probeset)
Affymetrix hta20 annotation data (chip hta20transcriptcluster)
A Tool for Individualized Coherent Absolute Risk Estimation
(iCARE)
Integrated Copy Number Variation detection
Comparison and Visualization of Ranking and Assignment Methods
QC Pipeline and Data Analysis Tools for High-Dimensional
Illumina mRNA Expression Data
An integrated analysis package of Gene expression and Copy
number alteration
Iteratively Adjusted Surrogate Variable Analysis
Integrating Cap Enrichment with Transcript Expression Analysis
Irreproducible Discovery Rate for Genomic Interactions Data
Parsing Illumina Microarray Output Files
Infer Copy Number Variation from Single-Cell RNA-Seq Data
IPD IMGT/HLA and IPD KIR database for Homo sapiens
Analyze isomiRs and miRNAs from small RNA-seq
Iteration removal method for feature selection
Plot customizable linear genomes displaying arbitrary data
A k-tables approach to integrate multiple Omics-Data
Retrieves Condition-Specific Variants in RNA-Seq Data
data structures for linkage disequilibrium measures in
populations
Logistic Factor Analysis for Categorical Data
GUI for limma Package With Two Color Microarrays
Modeling networks for individual samples using LIONESS
Data Mining and Analysis of Lipidomics Datasets
Loci2path: regulatory annotation of genomic intervals based on
tissue-specific expression QTLs
Symphony integer linear programming solver in R
Significant Gene Expression Profile Differences in Time Course
Gene Expression Data
Summarize, Analyze and Visualize MAF Files
Mapping Alternative Splicing Events to pRoteins
A framework for rapid prototyping with file-based data
structures
Mini-batch K-means Clustering for Single-Cell RNA-seq
Molecular Degree of Perturbation calculates scores for
transcriptome data samples based on their perturbation from
controls
Summary Statistics-Based Multivariate Meta-Analysis of
Genome-Wide Association Studies Using Canonical Correlation
Analysis
A package to run mixture models for truncated metabolomics data
with normal or lognormal distributions
Exploration of marker-gene sequence taxonomic annotations
R Interface to the metaviz web app for interactive metagenomics
data analysis and visualization
Simulating Whole-Genome Inherited Bisulphite Sequencing Data
Imputation-guided re-construction of complete methylomes from
WGBS data
Fast and efficient summarization of generic bedGraph files from
Bisufite sequencing
Estimate the cell composition of whole blood in DNA methylation
samples
Gene Set Analysis Using the Outcome of Differential Methylation
Permutation-Based Analysis associating Conserved Differentially
Methylated Elements Across Multiple Generations to a Treatment
Effect
DNA methylation analysis from high-throughput bisulfite
sequencing results
Example experimental data for use with the methyvim package
Targeted, Robust, and Model-free Differential Methylation
Analysis
Bayesian hierarchical mixture of factor analyzers for modelling
genomic bifurcations
A comprehensive and high-efficiency tool for converting and
retrieving the information of miRNAs in different miRBase
versions
Collection of mature miRNA names of 22 different miRBase release
versions
Dry lab for exploring miRNA-mRNA relationships
Convert miRNA Names to Different miRBase Versions
Inferring miRNA sponge modules by integrating expression data
and miRNA-target binding information
Tools to assess and compare miRNA expression estimatation
methods
Data package with miRNA-seq datasets from miRmine database as
RangedSummarizedExperiment
Identification and analysis of miRNA sponge interaction networks
and modules
SummarizedExperiment for the microRNAome project
Example data for the Illumina Methylation EPIC array
Analyze Illumina Infinium DNA methylation arrays
Summarised MinION sequencing data published by Ashton et al.
2015
Integrating microRNA expression into signaling pathways for
pathway analysis
Analysing Illumina HumanMethylation BeadChip Data
Handling Missing Individuals in Multi-Omics Data Integration
Multiple omics data integrative clustering and gene set analysis
Clustering, differential expression, and trajectory analysis for
single- cell RNA-Seq
Example data for the mosaics package, which implements MOSAiCS
and MOSAiCS-HMM, a statistical framework to analyze one-sample
or two-sample ChIP-seq data for transcription factor binding
and histone modification
A Package For Predicting The Disruptiveness Of Single Nucleotide
Polymorphisms On Transcription Factor Binding Sites
R package for analysing TFBSs in DNA sequences
Analyze massively parallel reporter assays
Fragmentation spectral libraries and data to test the msPurity
package
Automated Evaluation of Precursor Ion Purity for Mass
Spectrometry Based Fragmentation in Metabolomics
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS)
R functions
Affymetrix mta10 annotation data (chip mta10probeset)
Affymetrix mta10 annotation data (chip mta10transcriptcluster)
MetaboLights MTBLS2: Comparative LC/MS-based profiling of silver
nitrate-treated Arabidopsis thaliana leaves of wild-type and
cyp79B2 cyp79B3 double knockout plants. Böttcher et al. (2004)
multiClust: An R-package for Identifying Biologically Relevant
Clusters in Cancer Transcriptome Profiles
Normalize and detect differences between Hi-C datasets when
replicates of each experimental condition are available
Integration of multiple microRNA-target databases with their
disease and drug associations
Plot the effect of one omics data on other omics data along the
chromosome
Multi-sample multi-group scRNA-seq data analysis tools
Accesses MyVariant.info variant query and annotation services
nanotatoR: next generation structural variant annotation and
classification
Alignment of LC-MS Profiles by Neighbor-wise Compound-specific
Graphical Time Warping with Misalignment Detection
A model for network-based prioritisation of genes
Load FastqQC reports and other NGS related files
Preprocessing of Illumina Infinium 450K data
Normalization and difference calling in ChIP-seq data
An R package for prediction of nucleosome positions
Conditional knockdown of OCT4 in mouse ESCs
Outlier detection in multiple sequence alignments
Exposome and omic data associatin and integration analysis
Visual Exploration of Omic Datasets Using a Shiny App
Identifying Genes Overexpressed in Subsets of Tumors from
Tumor-Normal mRNA Expression Data
One-Dimensional Soli-Expression by Nonlinear Stochastic
Embedding (OneSENSE)
processing of ontologies of anatomy, cell lines, and so on
Multiplex PCR Primer Design and Analysis
Shiny Application for Multiplex PCR Primer Design and Analysis
Outlier profile and pathway analysis in R
Outlier Protein and Phosphosite Target Identifier
Genome wide annotation for Myxococcus xanthus DK 1622
CNV detection tool for targeted NGS panel data
RangedSummarizedExperiment for RNA-Seq of primary cultures of
parathyroid tumors by Haglund et al., J Clin Endocrinol Metab
2012.
Methods to Find Pathways with Significantly Different
Variability
Pathway fingerprint vectors representing a subsection of arrays
from the GEO data repository
Pathway fingerprinting for analysis of gene expression arrays
Integrative Pathway Analysis with Modern PCA Methodology and
Gene Selection
Interactive Visualization of RNA-seq Data Using a Principal
Components Approach
Correlation coefficients and p values between pre-defined
pathway/gene sets
Exploring, analyzing and visualizing functions utilizing the
pcxnData package
Platform Design Info for Affymetrix Clariom_D_Human
Platform Design Info for Affymetrix Clariom_S_Human_HT
Platform Design Info for Affymetrix Clariom_S_Human
Platform Design Info for Affymetrix Clariom_S_Mouse_HT
Platform Design Info for Affymetrix Clariom_S_Mouse
Platform Design Info for Affymetrix Clariom_S_Rat_HT
Platform Design Info for Affymetrix Clariom_S_Rat
Statistical Analysis of High-Throughput Genetic Perturbation
Screens
PGCA: An Algorithm to Link Protein Groups Created from MS/MS
Data
Visual and interactive gene expression analysis
Phenotypic EMD for comparison of single-cell samples
Genomic trajectories with heterogeneous genetic and
environmental backgrounds
Phylogenetic partitioning based ILR transform for metagenomics
data
Compensates for the bias introduced by median normalization in
phosphoproteomics
Handling and analysis of high-throughput microbiome census data
Pipeline framework for bioinformatics in R
Shiny app GUI wrapper for ggplot with built-in statistical
analysis
A fluent interface for manipulating GenomicRanges
Model-Based Comparative Analysis of the TCR Repertoire
Identification of potential quadruplex forming sequences
Pooling RNA-seq datasets for assembling transcript models
Prediction of pri-miRNA Transcription Start Site
Tools for Diagnostics and Corrections of Batch Effects in
Proteomics
Differential Abundance Analysis of Label-Free Mass Spectrometry
Data
Visualization and annotation of read signal over genomic ranges
with profileplyr
Pathway RespOnsive GENes for activity inference from gene
expression
Functions for the projection of weights from PCA, CoGAPS, NMF,
correlation, and clustering
Graphical Interface for Alternative Splicing Quantification,
Analysis and Visualisation
psygenet2r - An R package for querying PsyGeNET and to perform
comorbidity studies in psychiatric disorders
Analysis of pulsed-SILAC quantitative proteomics data
pwrEWAS.data: Reference data accompanying pwrEWAS
A user-friendly tool for comprehensive power estimation for
epigenome wide association studies (EWAS)
Comprehensive Pipeline for Analyzing and Visualizing Array-Based
CGH Data
Signature-based Clustering for Diagnostic Purposes
rWikiPathways - R client library for the WikiPathways API
Fast Methylome-Wide Association Study Pipeline for Enrichment
Platforms
Vectors used by frma for microarrays of type rat2302rnentrezg
Functionality to Read and Manipulate SomaLogic ADAT files
Explore and download data from the recount project
An R package for the creation of complex genomic profile plots
Generate HTML or PDF reports for a set of genomic regions or
DESeq2/edgeR results
L1-regularization based methods for detection of differential
splicing
Example metadata for the "restfulSE" R package
Access matrix-like HDF5 server content or BigQuery content
through a SummarizedExperiment interface
Exposome exploration and outcome data analysis
Analysis of sequencing data from ribosome profiling experiments
Ribosomal Database Project 16S rRNA release 11.5 Annotation Data
Benchmarks for RNA-seq Quantification Pipelines
PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and
feature selection of omics data
rqt: utilities for gene-level meta-analysis
Affymetrix rta10 annotation data (chip rta10probeset)
Affymetrix rta10 annotation data (chip rta10transcriptcluster)
R interface to genome annotation files and the UCSC genome
browser
runibic: row-based biclustering algorithm for analysis of gene
expression data in R
Systems biology tool to simulate gene regulatory circuits
samExploreR package: high-performance read summarisation to
count vectors with avaliability of sequencing depth reduction
simulation
Pre-processed data for use with the sampleClassifier package
An alignment and integration method for single cell genomics
A dimensionality reduction tool using gene detection pattern to
mitigate noisy expression profile of scRNA-seq
Mixture modeling of single-cell RNA-seq data to identify genes
with differential distributions
A correlation-based method for quality filtering of single-cell
RNAseq data
A complete analysis of single cell subpopulations, from
identifying subpopulations to analysing their relationship
(scGPS = single cell Global Predictions of Subpopulation)
scMerge: Merging multiple batches of scRNA-seq data
Sparse Contrastive Principal Component Analysis
pipeline for single cell RNA-seq data analysis
Collection of Public Single-Cell RNA-Seq Datasets
scRecover for imputation of single-cell RNA-seq data
Cell type annotation for unannotated single-cell RNA-Seq data
Detection of cell-cell interaction from single-cell RNA-seq
dataset by tensor decomposition
Single-Cell Analysis Toolkit for Gene Expression Data in R
In-Silico Annotation of Doublets for Single Cell RNA Sequencing
Data
A search tool for single cell RNA-seq data by gene lists
A tool for unsupervised projection of single cell RNA-seq data
Functions to conduct quality control analysis in methylation
data
Single Cell Overview of Normalized Expression data
Get inversion status in predefined regions
Methods for Single-Cell RNA-Seq Data Analysis
Single Cell RNA-Seq UMI Filtering Facilitator (scruff)
High Throughput Sequencing Cell Authentication Toolkit
Analysis of nucleotide, sequence and quality content on fastq
files
Visualization Tool for Sequence Recombination and Reassortment
Set Based Visualizations for Next-Gen Sequencing Data
Tools For Analyzing Illumina Infinium DNA Methylation Arrays
Computational Chromosome Conformation Capture by Correlation of
ChIP-seq at CTCF motifs
Seven Bridges Platform API Client and Common Workflow Language
Tool Builder in R
Interactive visualization for Illumina methylation arrays
sigFeature: Significant feature selection using SVM-RFE &
t-statistic
Statistics for Integrative Genomics Analyses in R
Multiple Testing using SAM and Efron's Empirical Bayes
Approaches
Statistics and dIagnostic Graphs for HTS
Environment for Gene Expression Searching Combined with
Functional Enrichment Analysis
Empirical Bayesian approach to mutational signature discovery
signet: Selection Inference in Gene NETworks
SILVA SSR rRNA release 128.1 Annotation Data
Metrics to estimate a level of similarity between two ChIP-Seq
profiles
Interactive Analysis of Single Cell RNA-Seq Data
Rank-based single-sample gene set scoring method
Detection of sites with fixation of amino acid substitutions in
protein evolution
Factorial Latent Variable Modeling of Single-Cell RNA-Seq Data
Tools for ordering single-cell sequencing
Putting the fun in LINCS L1000 data analysis
Segmentation, normalisation and processing of aCGH data
sojourner: An R package for statistical analysis of single
molecule trajectories
Sparse Data Observations for Simulating Synthetic Abundance
Using Gaussian graphical structue learning estimation in
generalized least squared regression for multivariate normal
regression
Simple Simulation of Single-cell RNA Sequencing Data
Time-course differential gene expression data analysis using
spline regression models followed by gene association network
reconstruction
Finding differentially expressed unannotated genomic regions
from RNA-seq data
stageR: stage-wise analysis of high throughput gene expression
data in R
Statistical Analysis of Molecular Profiles
Calculate strandness information of a bam file
Subsampling of high-throughput sequencing count data
supraHex: a supra-hexagonal map for analysing tabular omics data
Subtype Identification with Survival Data
Science-wise false discovery rate and proportion of true null
hypotheses estimation
Utilities to train and validate classifiers based on pair
switching using the K-Top-Scoring-Pair (KTSP) algorithm
Switch-like differential expression across single-cell
trajectories
Hits Selection for Synthetic Lethal RNAi Screen Data
systemPipeRdata: NGS workflow templates and sample data
Importing from tRNAdb and mitotRNAdb as GRanges objects
Importing a tRNAscan-SE result file as GRanges object
Predict Combined Function of Transcription Factors
Raw ground spectra recorded on Thermo Fisher Scientific mass
spectrometers
ontological exploration of scRNA-seq of 1.3 million mouse
neurons from 10x genomics
TWGBS and RNA-seq data from tissue T regulatory cells from mice
Import, process and analysis of ToF-SIMS imaging data
Import, process and analysis of Time-of-Flight Secondary Ion
Mass Spectrometry (ToF-SIMS) imaging data
Investigation of Fragmentation Conditions in Top-Down Proteomics
Example Files for the topdownr R Package
A R/Bioconductor package with web interface for drawing elegant
interactive tracks or lollipop plot to facilitate integrated
analysis of multi-omics data
trajectory-based differential expression analysis for sequencing
data
An Integrative Tool for ChIP- And RNA-Seq Based Primary
Transcripts Detection and Quantification
Transcriptional analysis based on transcriptograms
GWAS trait-associated SNP enrichment analyses in genomic
intervals
Base Classes and Functions for Phylogenetic Tree Input and
Output
Fit transcriptional regulatory networks using gene expression,
priors, machine learning
Classify 2-d Droplet Digital PCR (ddPCR) data and quantify the
number of starting molecules
Transcript Quantification Import with Automatic Metadata
Import and summarize transcript-level estimates for transcript-
and gene-level analysis
uSORT: A self-refining ordering pipeline for gene selection
Import, Modify, and Export Motifs with R
Quantify and interpret divers of variation in multilevel gene
expression experiments
Create rapid visualizations of RNAseq data in R
VirtUaL ChIP-Seq data Analysis using Networks
VirtUaL ChIP-Seq data Analysis using Networks, dummy dataset
Statistical tests for detecting differential distributions based
on the 2-Wasserstein distance
Make read coverage plots from BigWig files
YARN: Robust Multi-Condition RNA-Seq Preprocessing and
Normalization
support for expression, methylation, DHS, VCF for YRI
A suite of functions to facilitate zFPKM transformations
Zero-Inflated Negative Binomial Model for RNA-Seq Data
Bioconductor on the AnVIL compute environment
Tools for the Efficient Analysis of High-Resolution Genomics
Data
Full genome sequences for Drosophila virilis (assembly
dvir_caf1)
Full masked genome sequences for Homo sapiens (UCSC version
hg19, based on GRCh37.p13)
Full genome sequences for Homo sapiens (UCSC version hg19, based
on GRCh37.p13)
Full masked genome sequences for Homo sapiens (UCSC version
hg38, based on GRCh38.p12)
Full genome sequences for Homo sapiens (UCSC version hg38, based
on GRCh38.p12)
Automatic RNA-Seq present/absent gene expression calls
generation
Annotation and gene expression data retrieval from Bgee
database. TopAnat, an anatomical entities Enrichment Analysis
tool for UBERON ontology
A CAusal Reasoning tool for Network Identification (from gene
expression data) using Integer VALue programming
Coexpression for Transcription Factors using Regulatory Impact
Factors and Partial Correlation and Information Theory analysis
CiteFuse: multi-modal analysis of CITE-seq data
Finds DAMEs - Differential Allelicly MEthylated regions
Dynamic Programming Based Alignment of MS2 Chromatograms
Improving replicability in single-cell RNA-Seq cell type
discovery
Predicting Disease Progression Based on Methylation Correlated
Blocks using Ensemble Models
Storing and accessing epitranscriptomic information using the
AnnotationDbi interface
Graphical Exploration of Design Matrices
Find RAre Splicing Events in RNA-Seq Data
Creating R Connection with Google Cloud Storage
graph-GPA: A graphical model for prioritizing GWAS results and
investigating pleiotropic architecture
GPA (Genetic analysis incorporating Pleiotropy and Annotation)
Enjoy Analyzing And Integrating The Results From Differential
Expression Analysis And Functional Enrichment Analysis
Utilities for handling genomic interaction data
Collection of Bulk RNA-Seq Experiments With Many Replicates
Data package for JASPAR database (version 2020)
KnowSeq R/Bioc package: Beyond the traditional Transcriptomic
pipeline
Longitudinal Analysis of Cancer Evolution (LACE)
A normalization-invariant minimum enclosing ball method to
detect differentially expressed genes for RNA-seq data
Minor allele frequency data from gnomAD release 3.0 for GRCh38
stored using a HDF5 backend
S4 Generic Summary Statistic Functions that Operate on
Matrix-Like Objects
an R package for analysis, visualization and biomarker discovery
of microbiome
Working with modified nucleotide sequences
Non-parametric analysis of response curves for thermal proteome
profiling experiments
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment
A Robust and Scalable Software Package for Reproducible Analysis
of High-Throughput genotype-phenotype association
Plot Gene Ontology and KEGG pathway Annotation and Abundance
Automatic calculation of literature relevance of genes
A multi-tissue transcriptional age calculator
Receiver Operating Characteristic Partial Area Indexes for
evaluating classifiers
A Rank Based Approach to Modeling Gene Expression
A normalization and copy number estimation method for
single-cell DNA sequencing
Data management of large-scale whole-genome sequence variant
calls
Integrating Multi-modal Single Cell Experiment datasets
Cell Signalling Using Single Cell RNAseq Data Analysis
Targeted scRNA-seq primer design for TAP-seq
Profile RA-Seq Data Using TB Pathway Signatures
Detection of ligand-protein interactions from 2D thermal
profiles (DLPTP)
An alternative to dendrogram visualization and insertion of
multiple layers of information
Mappability tracks of Whole-genome Sequencing from the ENCODE
Project
Multiplexes Isobaric Mass Tagged-based Kinetics Data for Network
Analysis
Classes and functions for Array Comparative Genomic
Hybridization data
Annotate microarrays and perform cross-species gene expression
analyses using flat file databases
Freezing Python Versions Inside Bioconductor Packages
Exposes and makes available data from the cBioPortal web
resources
Automated functions for comparing various omic data from
cbioportal.org
Regulation Simulator of Interaction between miRNA and Competing
RNAs (ceRNA)
Classifier for Single-cell RNA-seq Using Cell Clusters
Compositional omics model based visual integration
Generating Tree Hierarchy Visualizations from Gene Expression
Data
A Curated Microarrays Dataset of MDI-induced Differentiated
Adipocytes (3T3-L1) Under Genetic and Pharmacological
Perturbations
Visualization of highly multiplexed imaging cytometry data in R
dagLogo: a Bioconductor package for visualizing conserved amino
acid sequence pattern in groups based on probability theory
Differential Expression Analysis for RNA-seq data through a
robust variance component test
distinct: a method for differential analyses via hierarchical
permutation tests
User Friendly Single-Cell and Bulk RNA Sequencing Visualization
Collection Of Human And Mouse TF Regulons
dPeak (Deconvolution of Peaks in ChIP-seq Analysis)
Helps creating report for improving Reproducible computational
Research
Bias Awared Peak Calling and Quantification for MeRIP-Seq
Poisson Models for Quantifying DNA Copy-number from FISH Images
of Tissue Sections
Fit a Gamma-Poisson Generalized Linear Model
Seamless visualization of complex genomic variations in GMOs and
edited cell lines
Example data for the GPA package (Genetic analysis incorporating
Pleiotropy and Annotation)
An openCL compiler with the capacity to compile R functions and
run the code on GPU
Single-gene classifiers and outlier-resistant detection of
differential expression for two-group and survival problems
An R package for the analysis and result reporting of RNA-Seq
data by combining multiple statistical algorithms
MethylSig: Differential Methylation Testing for WGBS and RRBS
Data
Multi-Contrast Gene Set Enrichment Analysis
Experimental data associated to the paper "Dynamical modelling
of phenotypes in a genome-wide RNAi live-cell imaging assay"
de novo Annotation of Pack-TYPE Transposable Elements
A Supervised Approach for **P**r**e**dicting **c**ell Cycle
Pr**o**gression using scRNA-seq data
Peak Matrix Processing and signal batch correction for
metabolomics datasets
Functions to creation of low dimensional comparative matrices of
Amino Acid Sequence occurrences
Random Rotation Methods for High Dimensional Data with Batch
Structure
rcellminer: Molecular Profiles, Drug Response, and Chemical
Structures for the NCI-60 Cell Lines
Unsupervised Identification of Genes with Expression Loss in
Subsets of Tumors
Resampling Collapsed Null Distributions for Simultaneous
Inference
regutools: an R package for data extraction from RegulonDB
Suffix Array Kernel Smoothing for discovery of correlative
sequence motifs and multi-motif domains
Identify genes associated with multiple expression phenotypes in
single-cell CRISPR screening data
The package contains examples of single cell data used in
vignettes and examples of the scTHI package; data contain both
tumor cells and immune cells from public dataset of glioma
Indentification of significantly activated ligand-receptor
interactions across clusters of cells from single-cell RNA
sequencing data
Small-Count Analysis Methods for High-Dimensional Data
Selecting the number of mutational signatures using a
perplexity-based measure and cross-validation
R/Bioconductor Package for interfacing with Snaptron for rapid
querying of expression counts
Statistical analysis of single molecule trajectories
Summary Statistics for Rows and Columns of Sparse Matrices
LIBD Visium spatial transcriptomics human pilot data inspector
Spatial analysis of in situ cytometry data
Data processing & analysis tools for Metabolomics and other
omics
Statistics in R Using Class-based Templates
A time series clustering package combining slope and Frechet
distances
Quantification and Visulization of Variations of Splicing in
Population
Weighted matrix manipulation, finding components of variation
with weighted or sparse data
Analysis of compositions of microbiomes with bias correction
Analysis of Alternative Splicing Using RNA-Seq
Automated spectraL Processing System for NMR
Provide functions to retrieve and report on usage expenses in
NHGRI AnVIL (anvilproject.org).
Publish Packages and Other Resources to AnVIL Workspaces
Full genome sequences for Apis mellifera (Amel_HAv3.1)
Full genome sequences for Chlamydomonas reinhardtii (v5.6)
Full genome sequences for Pan paniscus (UCSC version panPan1)
Full genome sequences for Pan paniscus (UCSC version panPan2)
Clustering and Resolution Enhancement of Spatial Transcriptomes
Standard Input and Output for Bioconductor Packages
Brain Span Atlas in Biobase Expressionset R toolset
Data structures, clustering and testing for single cell immune
receptor repertoires (scRNAseq RepSeq/AIRR-seq)
Analysis of single-cell epigenomics datasets with a Shiny App
DegNorm: degradation normalization for RNA-seq data
Test Files for Single-Cell Droplet Utilities
Quality control and analysis tools for Illumina DNA methylation
BeadChip
Manages subsets of data with Bioconductor Experiment objects
Detect Programmed Ribosomal Frameshifting Events from mRNA/cDNA
BLASTX Output
Tumor, tumor-adjacent normal, and healthy colorectal
transcriptomes as SummarizedExperiment objects
FFPE Artificial Chimeric Read Filter for NGS data
Mounting a Google Cloud bucket to a local directory
Make Biological Sense of Gene Set Enrichment Analysis Outputs
An Evolutionary Framework for the Identification and Study of
Prognostic Gene Expression Signatures in Cancer
Pipeline for augmented co-expression analysis
Extract and manage matrix data from the Human Cell Atlas project
Queries the Human Protein Atlas Staining Data for Multiple
Proteins and Genes
The Herper package is a simple toolset to install and manage
conda packages and environments from R
ILoReg: a tool for high-resolution cell population
identification from scRNA-Seq data
Analyze gene therapy vector insertion sites data identified from
genomics next generation sequencing reads for clonal tracking
studies
R implementation of Information measures
Client-side REST access to the Kyoto Encyclopedia of Genes and
Genomes (KEGG)
KnowSeq R/Bioc package: The Smart Transcriptomic Pipeline
Ligand-Receptor list for Arabidopsis thaliana (Ath, Thale cress,
Taxonomy ID: 3702)
Ligand-Receptor list for Bos taurus (Bta, Cow, Taxonomy ID:
9913)
Ligand-Receptor list for Caenorhabditis elegans (Cel, Worm,
Taxonomy ID: 6239)
Ligand-Receptor list for Drosophila melanogaster (Dme, Fruit
fly, Taxonomy ID: 7227)
Ligand-Receptor list for Danio rerio (Dre, Zebrafish, Taxonomy
ID: 7955)
Ligand-Receptor list for Gallus gallus (Gga, Chicken, Taxonomy
ID: 9031)
Ligand-Receptor list for Homo sapiens (Hsa, Human, Taxonomy ID:
9606)
Ligand-Receptor list for Mus musculus (Mmu, Mouse, Taxonomy ID:
10090)
Ligand-Receptor list for Pongo abelii (Pab, Orangutan, Taxonomy
ID: 9601)
Ligand-Receptor list for Rattus norvegicus (Rno, Rat, Taxonomy
ID: 10116)
Ligand-Receptor list for Sus scrofa (Ssc, Pig, Taxonomy ID:
9823)
Ligand-Receptor list for Xenopus tropicalis (Xtr, Tropical
clawed frog, Taxonomy ID: 8364)
MOGAMUN: A Multi-Objective Genetic Algorithm to Find Active
Modules in Multiplex Biological Networks
Package for Summarizing, Filtering, Imputing, and Normalizing
Metabolomics Data
Import Data from Various Mass Spectrometry Signal Processing
Tools to MSstats Format
Statistical Characterization of Post-translational Modifications
Post Translational Modification (PTM) Significance Analysis in
shotgun mass spectrometry-based proteomic experiments with
tandem mass tag (TMT) labeling
Mapping table for Nomascus leucogenys Gene ID to MeSH
A tool kit for dissecting cancer evolution from multi-region
derived tumor biopsies via somatic alterations
Assessing the regulatory potential of DNA methylation regions or
sites on gene transcription
Collection of Public DNA Methylation Sequencing Datasets
In-silico methods for genetic finemapping in inbred mice
Visualise methlation data from Oxford Nanopore sequencing
Single-Cell Data Visualisation Using Kernel Gene-Weighted
Density Estimation
User-friendly Workflow for Pre-processing and Statistical
Analysis of Mass Spectrometry Data
Peak-based selection of high quality cytometry data
A set of methods and tools for comprehensive analysis of
phosphoproteomics data
Quantitative features for mass spectrometry data
Comprehensive QTL annotation of GWAS results
Retroviral Integration Pattern Analysis Tool (RIPAT)
Modeling expression ranks for noise-tolerant differential
expression analysis of scRNA-Seq data
An R interface to the Common Workflow Language
Creating a DelayedMatrix of Regression Residuals
An Ultra-Fast and All-in-One Fastq Preprocessor (Quality
Control, Adapter, low quality and polyX trimming) and UMI
Sequence Parsing).
Mapping, quantification and variant analysis of sequencing data
"SBGNview: Data Analysis, Integration and Visualization on SBGN
Pathways"
Data for SCATE (Single-cell ATAC-seq Signal Extraction and
Enhancement)
SCATE: Single-cell ATAC-seq Signal Extraction and Enhancement
SCFA: Subtyping via Consensus Factor Analysis
Differential Abundant Analysis for Metabolomics, Proteomics and
single-cell RNA sequencing Data
Semi-parametric simulation tool for bulk and single-cell RNA
sequencing data
Deconvolution of mixed cells from spatial and/or bulk gene
expression data
S4 Class for Spatial Experiments handling
Spectra Infrastructure for Mass Spectrometry Data
TADCompare: Identification and characterization of differential
TADs
A Collection of Tumour Microenvironment Single-cell RNA
Sequencing Datasets and Correspodnding Metadata
Time sensitive microRNA-mRNA integration, analysis and network
generation tool
UMI4Cats: Processing, analysis and visualization of UMI-4C
chromatin contact data
Quantification and Visualization of Variations of Splicing in
Population
Set of tools to make V-plots and compute footprint profiles
Differential Gene Expression Analysis for Multi-subject
scRNA-seq
Reference-guided isoform reconstruction and quantification for
long read RNA-Seq data
Freezing Python Dependencies Inside Bioconductor Packages
Automate package and project setup for Bioconductor packages
This Package Helps Characterise and Visualise Whole Genome
Sequencing Data from Liquid Biopsy
External data sets for clustifyr in ExperimentHub
Correspondence Analysis for Single Cell Data
Customize and Query Compound Annotation Database
C++ infrastructure for representing and interacting with the
gated cytometry data
Visualization of highly multiplexed imaging data in R
Detecting abberant splicing events from RNA-sequencing data
Density-Preserving Data Visualization via Non-Linear
Dimensionality Reduction
Easy single cell analysis platform for enrichment
Functional analysis of metabolic and transcriptomic data
Precise and Accurate Automated Removal of Outlier Events and
Flagging of Files Based on Time Versus Fluorescence Analysis
Input data for the geneplast package via AnnotationHub
Programmatic access to the DEE2 RNA expression dataset
An R Package To Add Geometric Layers On Circular Or Other Layout
Tree Of "ggtree"
Bayesian Hidden Markov Model for the detection of differentially
methylated regions
An R Package For Geneset Enrichment Workflows
Profiling and Analyzing Intrinsically Disordered Proteins in R
Augmenting Massively Parallel Cytometry Experiments Using
Multivariate Non-Linear Regressions
R implementation of the LEfSE method for microbiome biomarker
discovery
megadepth: BigWig and BAM related utilities
Method for Combining LC-MS Metabolomics Feature Measurements
Mapping of Metabolite IDs from Different Sources
Inferring miRNA sponge modules in heterogeneous data
Imputation of label-free mass spectrometry peptides
Combining GSEA-based pathway enrichment with multi omics data
integration
Mutational Signature Comprehensive Analysis Toolkit
Discern RNA structure proximal to protein binding
Individualized Multi-Omic Pathway Deviation Scores Using
Multiple Factor Analysis
Temporal and Multiplex PageRank for Gene Regulatory Network
Analysis
Set of tools to identify periodic occurrences of k-mers in DNA
sequences
Compensates for the bias introduced by median normalization in
phosphoproteomics. This is done by taking enriched and
non-enriched data and creating a normalization factor.
preciseTAD: A machine learning framework for precise TAD
boundary prediction
Estimate Promoter Activity from RNA-Seq data
Explore and download data from the recount3 project
Access and Analyze DNA Methylation Array Databases
Statistical analysis of RNA editing sites and hyper-editing
regions
An interface to the Semantic MEDLINE database
sangeranalyseR: a suite of functions for the analysis of Sanger
sequence data in R
CB2 improves power of cell detection in droplet-based
single-cell RNA sequencing data
scDataviz: single cell dataviz and downstream analyses
A toolkit for single-cell immune receptor profiling
Mass Spectrometry-Based Single-Cell Proteomics Data Analysis
SEnsible Step-wise Analysis of DNA MEthylation BeadChips
Comprehensive and Interactive Analysis of Single Cell RNA-Seq
Data
Detection of site fixation in molecular evolution
R wrapper for the python openTSNE library
systemPipeRdata: Workflow templates and sample data
systemPipeShiny: An Interactive Framework for Workflow
Management and Visualization
Brings SingleCellExperiment to the Tidyverse
Brings SummarizedExperiment to the Tidyverse
A data package for timecourse RNA-seq and microarray gene
expression data sets
A tool set for 3D Trans-Omic network visualization with
Cytoscape
Interactive graphical application for clinical assessment of
sequence coverage at the base-pair level
Tools for matrices with precision weights, test and explore
weighted or sparse data
Metabolites and proteins linked to PathBank pathways (for
AnnotationHub)
SQLites, tibbles, and data.tables for AnnotationHub
Metabolites linked to WikiPathways pathways (for AnnotationHub)
Full genome sequences for Homo sapiens (UCSC version hg38, based
on GRCh38.p12) with injected major alleles (dbSNP151)
Full genome sequences for Homo sapiens (UCSC version hg38, based
on GRCh38.p12) with injected minor alleles (dbSNP151)
Full genome sequences for Rattus norvegicus (UCSC genome rn7)
Illumina EPIC data on BeadSorted adult saliva cells
Bio- and biomedical imaging dataset for machine learning and
deep learning (for ExperimentHub)
This R package for performing module repertoire analyses and
generating fingerprint representations
Category encoding method for selecting feature genes for the
classification of single-cell RNA-seq
CIMICE-R: (Markov) Chain Method to Inferr Cancer Evolution
A Framework of Functions to Combine, Analize and Interpret CNVs
Calling Results
Unbiased Extraction of Single Cell gene signatures using
Multiple Correspondence Analysis
Conditional Differential Analysis for Flow and Mass Cytometry
Experiments
Protein Interactions and Networks with Compounds based on
Sequences using Deep Learning
FEAture SelcTion (FEAST) for Single-cell clustering
Downloads ENA Fastqs With GEO Accessions
GEO accession data GSE13015_GPL6106 as a SummarizedExperiment
Reference data for GenomicDistributions package
Produces Summaries and Plots of Features Distributed Across
Genomes
Interpretation of RNA-seq experiments through robust, efficient
comparison to public databases
A fast hierarchical graph-based clustering method
Utilities to create and use Bioconductor Hubs
Comprehensive Analysis of Gene Interactivity Networks Based on
Single-Cell RNA-Seq
A Bioconductor package for identifying novel Alternative
PolyAdenylation Sites (PAS) from RNA-seq data
InterCellar: an R-Shiny app for interactive analysis and
exploration of cell-cell communication in single-cell
transcriptomics
Inference of gene regulatory networks from gene expression data
Marker gene information for LRcell R Bioconductor package
Differential cell type change analysis using Logistic/linear
Regression
MAGAR: R-package to compute methylation Quantitative Trait Loci
(methQTL) from DNA methylation and genotyping data
Assay characterization: estimation of limit of blanc(LoB) and
limit of detection(LOD)
"Multivariable Association Discovery in Population-scale
Meta-omics Studies"
Minor allele frequency data from gnomAD version 3.1.1 for GRCh38
Shiny-based interactive data-quality exploration for omics data
Modifying splice site usage by changing the mRNP code, while
maintaining the genetic code
Single-Cell -omics Data across Mouse Gastrulation and Early
Organogenesis
Single-cell Transcriptomics Data of the Ageing Mouse Thymus
Mass Spectrometry Data Backend for MassBank record Files
Mass Spectrometry Data Backend for Mascot Generic Format (mgf)
Files
Functionality for Mass Spectrometry Features
Standardise summary statistics from GWAS
Predict open reading frames in nucleotide sequences
Ob/ob Mice Data on Normal and High Fat Diet
User-friendly Workflow for Metabolomics and Proteomics Data
Analysis
Simulation, power evaluation, and sample size recommendation for
single cell RNA-seq
PhenoGeneRanker: A gene and phenotype prioritization tool
Positive Droplet Calling for DNA Methylation Droplet Digital PCR
Generic infrastructure for Bioconductor mass spectrometry
packages
Rank Constrained Similarity Learning for single cell RNA
sequencing data
A reweighted Lasso-Cox by integrating gene interaction
information
Rbec: a tool for analysis of amplicon sequencing data from
synthetic microbial communities
RcisTarget Identify transcription factor binding motifs enriched
on a list of genes or genomic regions
Interface for the Reactome Content Service
Interface for the Reactome Graph Database
Differential pattern analysis for Ribo-seq data
Supporting datasets for SBGNview package
Large-scale single-cell RNA-seq data manipulation with GDS files
Differential Abundant/Expression Analysis for Metabolomics,
Proteomics and single-cell RNA sequencing Data
Collection of spatially resolved transcriptomics datasets in
SpatialExperiment Bioconductor format
Creating a DelayedMatrix of Scaled and Centered Values
SimBenchData: a collection of 35 single-cell RNA-seq data
covering a wide range of data characteristics
Data supporting the SingleMoleculeFootprinting pkg
Analysis tools for Single Molecule Footprinting (SMF) data
Splicing Diversity Analysis for Transcriptome Data
Summix: A method to estimate and adjust for population structure
in genetic summary data
Profile RNA-Seq Data Using TB Pathway Signatures
Visium spatial gene expression data by 10X Genomics
A Collection of Tumour Microenvironment Single-cell RNA
Sequencing Datasets and Corresponding Metadata
This Package Discovers Directionality in Time and Pseudo-times
Series of Gene Expression Patterns
An utility to create an ALTREP object with a virtual pointer
Displaying binary trees with focus on dendrogram leaves
VarCon: an R package for retrieving neighboring nucleotides of
an SNV
Efficient Manipulation of Modified Oligonucleotide Sequences
Affymetrix Affymetrix AG Array annotation data (chip ag)
Affymetrix Affymetrix ATH1-121501 Array annotation data (chip
ath1121501)
Generifying and intuifying cross-platform omics analysis
Functions for Analyzing Cellular Barcoding Data
biodb, a library and a development framework for connecting to
chemical and biological databases
Training of logical models from indirect measurements of
perturbation experiments
Affymetrix Affymetrix Bovine Array annotation data (chip bovine)
Affymetrix Affymetrix Canine Array annotation data (chip canine)
Affymetrix Affymetrix Canine_2 Array annotation data (chip
canine2)
Generate, manage, and edit data and metadata files suitable for
the import in cBioPortal for Cancer Genomics
Affymetrix Affymetrix Celegans Array annotation data (chip
celegans)
Track Cells, Analyze Cell Trajectories and Compute Migration
Statistics
Differential abundance analysis with a right censored covariate
in high-dimensional cytometry
Affymetrix Affymetrix Chicken Array annotation data (chip
chicken)
cleanUpdTSeq cleans up artifacts from polyadenylation sites from
oligo(dT)-mediated 3' end RNA sequending data
Tools for performing taxonomic assignment
A universal enrichment tool for interpreting omics data
Higher-order chromatin domain inference in single cells from
scRNA-seq and scATAC-seq
ScRNA-seq Workflow CONCLUS - From CONsensus CLUSters To A
Meaningful CONCLUSion
Differential Topology, Progression and Differentiation
COSMOS (Causal Oriented Search of Multi-Omic Space)
Phytoplankton Population Identification using Cell Pigmentation
and/or Complexity
Pathway Enrichment Based on Differential Causal Effects
Package to decouple gene sets from statistics
diffUTR: Streamlining differential exon and 3' UTR usage
Managing Expiration for Cache Directories
Affymetrix Affymetrix DrosGenome1 Array annotation data (chip
drosgenome1)
Affymetrix Affymetrix Drosophila_2 Array annotation data (chip
drosophila2)
Helps creating report for improving Reproducible Computational
Research
Affymetrix Affymetrix E_coli_2 Array annotation data (chip
ecoli2)
An ExperimentHub Package for data sets with an Epithelial to
Mesenchymal Transition (EMT)
epidecodeR: a functional exploration tool for epigenetic and
epitranscriptomic regulation
Epigenomic R-based analysis with hidden Markov models
The ewceData package provides reference data required for ewce
Bias-aware Peak Calling and Quantification for MeRIP-Seq
Fisher's Test for Enrichment and Depletion of User-Defined
Pathways
Hierarchical ensemble method based on factor graph
Identifying differential cell populations in flow cytometry data
accounting for marker frequency
Gene Expression Variation Analysis (GEVA)
Rapid benchmarking of methods for *in silico* deconvolution of
bulk RNA-seq data
A text file in cloud with March 30 2021 snapshot of EBI/EMBL
GWAS catalog
Exploring the Human Cell Atlas Data Coordinating Platform
Affymetrix Affymetrix HC_G110 Array annotation data (chip
hcg110)
Affymetrix Affymetrix HG-Focus Array annotation data (chip
hgfocus)
Affymetrix Affymetrix HG-U133A Array annotation data (chip
hgu133a)
Affymetrix Affymetrix HG-U133A_2 Array annotation data (chip
hgu133a2)
Affymetrix Affymetrix HG-U133B Array annotation data (chip
hgu133b)
Affymetrix Affymetrix HG-U133_Plus_2 Array annotation data (chip
hgu133plus2)
Affymetrix Affymetrix HG_U95A Array annotation data (chip
hgu95a)
Affymetrix Affymetrix HG_U95Av2 Array annotation data (chip
hgu95av2)
Affymetrix Affymetrix HG_U95B Array annotation data (chip
hgu95b)
Affymetrix Affymetrix HG_U95C Array annotation data (chip
hgu95c)
Affymetrix Affymetrix HG_U95D Array annotation data (chip
hgu95d)
Affymetrix Affymetrix HG_U95E Array annotation data (chip
hgu95e)
Affymetrix Affymetrix HT_HG-U133A Array annotation data (chip
hthgu133a)
Affymetrix Affymetrix HT_HG-U133B Array annotation data (chip
hthgu133b)
Affymetrix Affymetrix HT_HG-U133_Plus_A Array annotation data
(chip hthgu133plusa)
Affymetrix Affymetrix HT_HG-U133_Plus_B Array annotation data
(chip hthgu133plusb)
Affymetrix Affymetrix HT_HG-U133_Plus_PM Array annotation data
(chip hthgu133pluspm)
Affymetrix Affymetrix HT_MG-430A Array annotation data (chip
htmg430a)
Affymetrix Affymetrix HT_MG-430B Array annotation data (chip
htmg430b)
Affymetrix Affymetrix HT_MG-430_PM Array annotation data (chip
htmg430pm)
Affymetrix Affymetrix HT_Rat230_PM Array annotation data (chip
htrat230pm)
Affymetrix Affymetrix HT_Rat-Focus Array annotation data (chip
htratfocus)
Affymetrix Affymetrix Hu35KsubA Array annotation data (chip
hu35ksuba)
Affymetrix Affymetrix Hu35KsubB Array annotation data (chip
hu35ksubb)
Affymetrix Affymetrix Hu35KsubC Array annotation data (chip
hu35ksubc)
Affymetrix Affymetrix Hu35KsubD Array annotation data (chip
hu35ksubd)
Affymetrix Affymetrix Hu6800 Array annotation data (chip hu6800)
Collection of publicly available imaging mass cytometry (IMC)
datasets
Tools for working with diverse immune genes
The Generation of Interactive Circos Plot
lisaClust: Clustering of Local Indicators of Spatial Association
motif matching, comparison, and de novo discovery using the MEME
Suite
Meta-Analyses on P-Values of Differential Analyses
Affymetrix Affymetrix MG_U74A Array annotation data (chip
mgu74a)
Affymetrix Affymetrix MG_U74Av2 Array annotation data (chip
mgu74av2)
Affymetrix Affymetrix MG_U74B Array annotation data (chip
mgu74b)
Affymetrix Affymetrix MG_U74Bv2 Array annotation data (chip
mgu74bv2)
Affymetrix Affymetrix MG_U74C Array annotation data (chip
mgu74c)
Affymetrix Affymetrix MG_U74Cv2 Array annotation data (chip
mgu74cv2)
Flexible, probabilistic metrics for quality control of scRNA-seq
data
Microbiome Analysis Plotting and Visualization
Experiment Hub based microbiome datasets
R package for immunogenomics data handling and association
analysis
Differential neighbourhood abundance testing on a graph
Microbial community dIversity and Network Analysis
Multiview Intercellular SpaTial modeling framework
An R Package for Time Course RNASeq Data Analysis
Affymetrix Affymetrix MOE430A Array annotation data (chip
moe430a)
Affymetrix Affymetrix MOE430B Array annotation data (chip
moe430b)
Affymetrix Affymetrix Mouse430_2 Array annotation data (chip
mouse4302)
Affymetrix Affymetrix Mouse430A_2 Array annotation data (chip
mouse430a2)
An ExperimentHub Package for the Molecular Signatures Database
(MSigDB)
Robust statistical inference for quantitative LC-MS proteomics
Affymetrix Affymetrix Mu11KsubA Array annotation data (chip
mu11ksuba)
Affymetrix Affymetrix Mu11KsubB Array annotation data (chip
mu11ksubb)
Affymetrix Affymetrix Mu19KsubA Array annotation data (chip
mu19ksuba)
Affymetrix Affymetrix Mu19KsubB Array annotation data (chip
mu19ksubb)
Affymetrix Affymetrix Mu19KsubC Array annotation data (chip
mu19ksubc)
Multi-omics Classification, Functional Enrichment and Network
Inference analysis
Inferring unobserved perturbations from gene expression data
Comprehensive analysis of transcriptome data
Compensates for the bias introduced by median normalization in
Placental DNA methylation analysis tools
Affymetrix Affymetrix Porcine Array annotation data (chip
porcine)
Probabilistic Outlier Identification for RNA Sequencing
Generalized Linear Models
Pre-trained random forest models obtained using preciseTAD
PTR-TOF-MS volatolomics raw datasets from exhaled air and cell
culture headspace
Quantification of the Tumor Immune contexture from RNA-seq data
Affymetrix Affymetrix RAE230A Array annotation data (chip
rae230a)
Affymetrix Affymetrix RAE230B Array annotation data (chip
rae230b)
Detection of Rare Aberrantly Methylated Regions in Array and NGS
Data
Affymetrix Affymetrix Rat230_2 Array annotation data (chip
rat2302)
Direct Access to Orbitrap Data and Beyond
Access and analyze DNA methylation database compilations
Affymetrix Affymetrix RG_U34A Array annotation data (chip
rgu34a)
Affymetrix Affymetrix RG_U34B Array annotation data (chip
rgu34b)
Affymetrix Affymetrix RG_U34C Array annotation data (chip
rgu34c)
Affymetrix Affymetrix RN_U34 Array annotation data (chip rnu34)
Affymetrix Affymetrix RT_U34 Array annotation data (chip rtu34)
Scalable Analysis of Differential Transcript Usage for Bulk and
Single-Cell RNA-sequencing Applications
Pretrained learning models for cell type prediction on single
cell RNA-sequencing data
sechm: Complex Heatmaps from a SummarizedExperiment
An R package for the easy provision of simple but complete
tab-delimited genomic annotation from a variety of sources and
organisms
Phylogenetic pathway–dependent recognition of fixed
substitutions and parallel mutations
spatialLIBD: an R/Bioconductor package to visualize
spatially-resolved transcriptomics data
Estimation of the science-wise false discovery rate and the
false discovery rate conditional on covariates
Assessment of evidence for LOH in spatial transcriptomics
pre-processed data using Bayes factor calculations
Cytometry Cluster Hierarchy and Proportions to Parent
tricycle: Transferable Representation and Inference of cell
cycle
Tokenizing Text of Gene Set Enrichment Analysis
Visualising Set Enrichment Analysis Results
Affymetrix Affymetrix Yeast_2 Array annotation data (chip
yeast2)
Affymetrix Affymetrix YG_S98 Array annotation data (chip ygs98)
Affymetrix Affymetrix Zebrafish Array annotation data (chip
zebrafish)
Full masked genome sequences for Bos taurus (UCSC version
bosTau9)
Full masked genome sequences for Homo sapiens (UCSC version
hg38, based on GRCh38.p13)
Full masked genome sequences for Mus musculus (UCSC genome mm10,
based on GRCm38.p6)
Batch Effect Correction with Unknow Subtypes for scRNA-seq data
Binding site defintion based on iCLIP data
R-side access to BioPlex protein-protein interaction data
Genomic coordinates of CTCF binding sites, with orientation
Cepo for the identification of differentially stable genes
Compare genomic intervals tool - Automated, complete,
reproducible and clear report about genomic and epigenomic data
sets
R package for sparse and out-of-core arithmetic and
decomposition of Tensor
Normalization of Single-Cell mRNA Sequencing Data
FLAMES: Full Length Analysis of Mutations and Splicing in long
read RNA-seq data
find influential TF and Target based on multi-omics data
GEOexplorer: an R/Bioconductor package for gene expression
analysis and visualisation
GEO accession data GSE103322 as a SingleCellExperiment
Placental cell DNA methylation data from GEO accession GSE159526
GenomicDistributions: fast analysis of genomic intervals with
Bioconductor
Count model based differential expression and normalization on
GeoMx RNA data
LiP Significance Analysis in shotgun mass spectrometry-based
proteomic experiments
An R/shiny package for microbiome functional enrichment analysis
A comprehensive R package for managing and analyzing microbiome
and other ecological data within the tidy framework
Mass Spectrometry Backend for Reading Thermo Fisher Scientific
raw Files
An Easy Pipeline for NanoString nCounter Data Analysis
NEUral network-based single-Cell Annotation tool
Core Engine for NxtIRF: a User-Friendly Intron Retention and
Alternative Splicing Analysis using the IRFinder Engine
Optimising the Definition of Expressed Regions
Omixer: multivariate and reproducible sample randomization to
proactively counter batch effects in omics studies
Generation of customized protein variant databases from genomic
variants, splice-junctions and manual sequences
An ExperimentHub package for accessing processed RLSuite data
sets
RLSeq: An analysis package for R-loop mapping data
STRINGdb - Protein-Protein Interaction Networks and Functional
Enrichment Analysis
Identifies cell population in flow cytometry data
Toolbox for mRNA epigenetics sequencing analysis
Bulk and single-cell RNA-seq data from the Tabula Muris Senis
project
Diagnostic Plots to Evaluate the Target Decoy Approach
Generating Samples of Gene Expression Data with Variational
Autoencoders
Benchmark of differential abundance methods on microbiome data
biodbChebi, a library for connecting to the ChEBI Database
biodbHmdb, a library for connecting to the HMDB Database
biodbKegg, a library for connecting to the KEGG Database
biodbLipidmaps, a library for connecting to the Lipidmaps
Structure database
biodbUniprot, a library for connecting to the Uniprot Database
R-side access to published microbial signatures from BugSigDB
cfDNAPro Helps Characterise and Visualise Whole Genome
Sequencing Data from Liquid Biopsy
Chromosome Size, Coordinates and Anchor Files
A package for the CLIP data visualization
Curation of existing 49 tuberculosis transcriptomic studies
Differential expression using kernel-based score test
Identifying differentially reactive regions from RNA structurome
profiling data
Simulation and Deconvolution of Omic Profiles
decoupleR: Ensemble of computational methods to infer biological
activities from omics data
easier internal data and exemplary dataset from
IMvigor210CoreBiologies package
Estimate Systems Immune Response from RNA-seq data
Identification of putative mammalian orthologs to given enhancer
Heatmaps of Stack Profiles from Epigenetic Signals
Genomic coordinates of problematic genomic regions
Genomic Instability estimation for scRNA-Seq
genphen: tool for quantification of genotype-phenotype
associations in genome wide association studies (GWAS)
Visualization functions for spatially resolved transcriptomics
data
iPath pipeline for detecting perturbed pathways at individual
level
Methods for imaging mass cytometry data analysis
Conducts pathway test of metabolomics data using a weighted
permutation test
Methylclock - DNA methylation-based clocks
Clonal Population Identification in Single-Cell RNA-Seq Data
using Mitochondrial and Somatic Mutations
Binned Motif Enrichment Analysis and Visualization
Molecular Signature identification using Biclustering
Next generation structural variant annotation and classification
Multi-Omics (time-course) network-based integration and
interpretation
ExperimentHub datasets for the nullranges package
Generation of null ranges via bootstrapping or covariate
matching
Access Pathways from Multiple Databases Through BioPAX and
Pathway Commons
Fit Penalised Generalised Least Squares models
Datasets and test data files for the plotgardener package
Coordinate-Based Genomic Visualization Package for R
A package that contains the bait to prey directed graphs for
protein-protein interactions
Demonstration Data from rGenomeTracks Package
Integerated visualization of epigenomic data
Identification of Transcriptional Regulatory Modules from
Protein-Protein Interaction Networks
A Collection of Single-cell ATAC Sequencing Datasets and
Corresponding Metadata
Pretrained models for scAnnotatR package
scReClassify: post hoc cell type classification of single-cell
RNA-seq data
A Statistical Framework for Modeling and Identifying
Differential Distributions in Single-cell RNA-sequencing Data
R/Bioconductor package to interactively explore and visualize
single cell RNA-seq datasets with hierarhical annotations
miRNA Affinity models for the scanMiR package
Creates hatched patterns for scatterplots
Perform Chromatin Segmentation Analysis in R by Calling ChromHMM
Phylogeny-based sequence clustering with site polymorphism
Take command of set enrichment analyses through a unified
interface
Spatial allelic expression counts for fly cross embryo
Identification of enriched motif pairs from chromatin
interaction data
Spike-in calibration for cell-free MeDIP
Rapid Comparison of Surface Protein Isoform Membrane Topologies
Through surfaltr
NUMT detection from structural variant calls
Retrotransposed transcript detection from structural variants
An R package to automate the analysis of double-strand break
repair during meiosis
Variance Stabilizing Transformation for Gamma-Poisson Models
Trajectory functions for visualization and interpretation.
Cytometry Cluster Hierarchy and Cellular-to-phenotype
Associations
Tuberculosis Gene Expression Data for Machine Learning
VeloViz: RNA-velocity informed 2D embeddings for visualizing
cell state trajectories
Illumina 450 and EPIC methylation array normalization and
metrics
Microbiome differential abudance and correlation analyses with
bias correction
Functional annotation-driven unsupervised clustering for
single-cell data
Refitting diploid region profiles using a clustering procedure
Full genome sequences for Callithrix jacchus (UCSC version
calJac4)
Full Genome Sequence for Cryptococcus neoformans var. grubii
KN99 (ASM221672v1)
Full genome sequences for Glycine max (Gmv40)
T2T-CHM13v2.0 assembly (Homo sapiens) wrapped in a BSgenome
object
Full genome sequences for Homo sapiens (UCSC version hg38, based
on GRCh38.p13)
Full genome sequences for Macaca fascicularis
(Macaca_fascicularis_6.0)
Full genome sequences for Mus musculus (UCSC version mm10, based
on GRCm38.p6)
Full genome sequences for Mus musculus (UCSC genome mm39, based
on GRCm39)
Competitive Balances for Taxonomic Enrichment Analysis in R
Creating and Using (Chemical) Compound Annotation Databases
Inferring tumor-specific cancer dependencies through integrating
ex-vivo drug response assays and drug-protein profiling
Differentially regulated genes from scRNA-seq data
Comparison, Benchmarking & QC of Epigenetic Datasets
Error correction tool for noisy genotyping by sequencing (GBS)
data
GRaNIE: Reconstruction cell type specific gene regulatory
networks including enhancers using chromatin accessibility and
RNA-seq data
GUIDE-seq and PEtag-seq analysis pipeline
Generating Protein Sequences with Deep Generative Models
A R/Bioconductor package to detect the interaction nodes from
HiC/HiChIP/HiCAR data
Identify Novel Alternative PolyAdenylation Sites (PAS) from
RNA-seq data
Data package for JASPAR database (version 2022)
Evaluation and correction of batch effects in microbiome
data-sets
MSA2dist calculates pairwise distances between all sequences of
a DNAStringSet or a AAStringSet using a custom score matrix and
conducts codon based analysis
Prioritization of potentially bioactive metabolic features from
epidemiological and environmental metabolomics datasets
Minor allele frequency data from gnomAD version 3.1.2 for GRCh38
Utilities for Annotation of Metabolomics Data
Effective mobility scale transformation of CE-MS(/MS) data
Detect binding sites from motifs and ChIP-seq experiments, and
compare binding sites across conditions
Mass Spectrometry Data Backend for NIST msp Files
Calculate, visualize and analyse overlap between genomic regions
User-friendly Workflow for Omics Data Analysis
Handling and Managing Peptide Spectrum Matches
Detection of miRNAs that regulate interacting groups of pathways
R package implementing the Cytoscape Exchange (CX) format
R wrapper for BWA-backtrack and BWA-MEM aligners
RolDE: Robust longitudinal Differential Expression
SNP locations and alleles for Homo sapiens (dbSNP Human Build
155)
Reference-free Cell-Type Deconvolution of Multi-Cellular
Spatially Resolved Transcriptomics Data
Collection of spatially-resolved transcriptomics datasets in
SpatialExperiment Bioconductor format
S4 Class for Spatially Resolved Transcriptomics Data
An R package estimates the correlations of orthologs and
transposable elements between two species
Tools for finding Total RNA Expression Genes in single nucleus
RNA-seq data
UCSC RepeatMasker AnnotationHub resource metadata
Rank-based signature enrichment analysis for single-cell data
Vectra Polaris and Vectra 3 multiplex single-cell imaging data
An R package to for the Bayesian analysis of differential
subcellular localisation experiments
biodbExpasy, a library for connecting to Expasy ENZYME database.
biodbMirbase, a library for connecting to miRBase mature
database
biodbNcbi, a library for connecting to NCBI Databases.
biodbNci, a library for connecting to biodbNci, a library for
connecting to the National Cancer Institute (USA) CACTUS
Database
Bisulfite-seq OutlieR mEthylation At singLe-sIte reSolution
Discover and Access Single Cell Data Sets in the cellxgene Data
Portal
Predict cis-co-accessibility from single-cell chromatin
accessibility data
Accurate identification of co-methylated and differentially
methylated regions in epigenome-wide association studies
Systematic quality checks on comparative genomics analyses
Crossover analysis and genetic map construction
Base functions and classes for CRISPR gRNA design
Bowtie-based alignment of CRISPR gRNA spacer sequences
BWA-based alignment of CRISPR gRNA spacer sequences
Pre-trained models for the crisprScore package
On-Target and Off-Target Scoring Algorithms for CRISPR gRNAs
Robust outlier identification for DNA methylation data
Peak Calling and differential analysis for MeRIP-Seq
Additional functions for working with ChIP-Seq data
Phylogenetic, Distance and Other Calculations on VCF and Fasta
Files
Fishpond: downstream methods and tools for expression data
Automated Removal of Outlier Events and Flagging of Files Based
on Time Versus Fluorescence Analysis
Variable Selection in Finite Mixture of AFT Regression and FMR
Models
Dowloads A Gene Expression Dataset From GEO And Checks If It
Contains Data Of Healthy Controls Or Not
Preprocessing, analyzing, and reporting of RNA-seq data
Detection of SARS-CoV-2 lineages in wastewater samples using
next-generation sequencing
Integrative analysis of the microbiome and metabolome
Identification and analysis of miRNA sponge regulation
Integrate methods: PANDA, LIONESS, CONDOR, ALPACA, SAMBAR,
MONSTER, OTTER, EGRET, and YARN into one workflow
Scalable identification of spatially variable genes in
spatially-resolved transcriptomics data
Interactive and explorative visualization of
SummarizedExperssionSet or ExpressionSet using omicsViewer
C++ Library for OpenMP-based multi-threaded sequential profiling
of Binary Alignment Map (BAM) files
Pathway enrichment using a regularized regression approach
Protein Micro Array Data Management and Interactive
Visualization
Quantitative Metabolomics Data Processing Tools
Generate Quality Surrogate Variable Analysis for Degradation
Correction
Access and analyze public DNA methylation array data
compilations
Lipid Shorthand Name Parsing and Normalization
'rifi' anyalyses data from rifampicin time series ceated by
microarray or RNAseq
Design Degenerate Oligos from a Multiple DNA Sequence Alignment
Single Sample directioNAl Pathway Perturbation analYsis
Robust Outlier-aware Estimation of Composition and Heterogeneity
for Single-cell Data
Identify Different Architectures of Sequence Elements
Visualization Tool for Genetic Reassortment
Accurate consensus sequence from nanopore reads of a gene
library
Spatial transcriptome analyses of Nanostring's DSP data in R
OpenAccess TCGA Data on Terra as MultiAssayExperiment
Analysis Tools for scATACseq Data with CoGAPS
Transcription Factor Enrichment Analysis for ATAC-seq
Illumina EPIC data on BeadSorted child saliva cells
General utility functions for developing Bioconductor packages
Illustration of FHIR ingestion and transformation using R
Collection of simple tools for learning about Bioconductor
Packages
Identification of cell-type-specific spatially variable genes
accounting for excess zeros
A toolkit for end-to-end analysis of RNA-seq data for circular
genomes
Identification of gene fusions using paired-end sequencing
Comparison, Benchmarking & QC of Epigenomic Datasets
EpiMix: an integrative tool for the population-level analysis of
DNA methylation
A Correlation Based Multiview Self Organizing Maps Clustering
For IMC Datasets
Compute the automorphisms between DNA's Abelian group
representations
A set of annotation maps describing the entire Human Disease
Ontology
A/B compartment detection and differential analysis
Individual-Specific ceLl typE referencing Tool
MSstats GUI for Statistical Anaylsis of Proteomics Experiments
Peak Detection for Mass Spectrometry data using wavelet-based
algorithms
Datasets for benchmarking in microbiome research
Infrastructure for Mass Spectrometry Experiments
Data required for getting the gene set scores with NetActivity
package
Compute gene set scores from a deep learning framework
Integrating Multi-Omic Network Data With Summay-Level GWAS Data
RESOLVE: An R package for the efficient analysis of mutational
signatures from cancer genomes
Provide a 'redis' back-end for BiocParallel
Colocalization analysis of transcriptome elements in the
presence of isoform heterogeneity and ambiguity
Human SNP locations and alleles extracted from dbSNP Build 155
and placed on the GRCh37/hg19 assembly
Human SNP locations and alleles extracted from dbSNP Build 155
and placed on the GRCh38/hg38 assembly
Selecting the number of mutational signatures through
cross-validation
Package to Perform High Throughput Biological Screening
Data Management of Large-Scale Whole-Genome Sequence Variant
Calls
Simulate Bulk RNA-seq Datasets from Single-Cell Datasets
Integrating SpatialExperiment with Simple Features in sf
Easy, optimized, and accurate alternative splicing analysis in R
SpotClean adjusts for spot swapping in spatial transcriptomics
data
A package to identify changes in cell state relative to spatial
associations
Spatially-resolved transcriptomics and single-nucleus
RNA-sequencing data from the locus coeruleus (LC) in postmortem
human brain samples
Context-Aware Transcript Quantification from Long Read RNA-Seq
data
An R package for the Bayesian analysis of differential
subcellular localisation experiments
Clone Identification from Single Cell Data
ccImpute: an accurate and scalable consensus clustering based
approach to impute dropout events in the single-cell RNA-seq
data (https://doi.org/10.1186/s12859-022-04814-8)
cfDNAPro extracts and Visualises biological features from whole
genome sequencing data of cell-free DNA
Comprehensive design of CRISPR gRNAs for nucleases and base
editors
Easily install and load the crisprVerse ecosystem for CRISPR
gRNA design
Visualization Functions for CRISPR gRNAs
Demultiplexing oligo-barcoded scRNA-seq data using regression
mixture models
eds: Low-level reader for Alevin EDS format
An R package to identify multi-snp effects in nuclear family
studies using the GADGETS method
Functional Annotation of Custom Transcriptomes
A wrapper for Gemma's Restful API to access curated gene
expression data and differential expression analyses
Statistical inference based on the Sorensen-Dice dissimilarity
and the Gene Ontology (GO)
iSEE extension for summarising data points in hexagonal bins
Detection, Characterization and Visualization of Kataegis in
Sequencing Data
Motif Analysis In Gene Regulatory Networks
Abundance and Compositional Based Binning of Metagenomes
Predict synthetic lethal partners of tumour mutations
Unified methods for the inference and analysis of gene
regulatory networks
Open Cancer TherApeutic Discovery (OCTAD) database
Open Cancer TherApeutic Discovery (OCTAD)
Machine learning tools for automated transcriptome clustering
analysis
Secondary analyses of CNV data (HRD and more)
UCSC phastCons mm39 conservation scores AnnotationHub Resource
Metadata
Postprocessing and univariate analysis of omics data
UCSC phyloP mm39 conservation scores AnnotationHub Resource
Metadata
Tools for quantitative proteomics data analysis
GREAT Analysis - Functional Enrichment on Genomic Regions
RegioneReloaded: Multiple Association for Genomic Region Sets
'rifi' analyses data from rifampicin time series created by
microarray or RNAseq
Quantitative visual exploration of scRNA-seq data
A compositional model to assess expression changes from
single-cell rna-seq data
Bayesian modelling of cell-to-cell DNA methylation heterogeneity
Scifer: Single-Cell Immunoglobulin Filtering of Sanger Sequences
Implementations of transcriptional cancer signatures
A package to perform simple cell segmentation
Spatial point data simulator for tissue images
stJoincount - Join count statistic for quantifying spatial
correlation between clusters
Inference And Analysis Of Synteny Networks
Quantify and interpret drivers of variation in multilevel gene
expression experiments
Gene set analysis following differential expression using linear
(mixed) modeling with dream
Infrastructure for Biostrings-based genome data packages and
support for efficient SNP representation
Install/Update Bioconductor, CRAN, and github Packages
BubbleTree: an intuitive visualization to elucidate tumoral
aneuploidy and clonality in somatic mosaicism using next
generation sequencing data.
Bayesian mixture models for copy number polymorphisms
A framework for two-class classification problems, with
applications to differential variability and differential
distribution testing
DiffLogo: A comparative visualisation of sequence motifs
Representation and manipulation of genomic intervals and
variables defined along a genome
Analysis of 4sU-seq and RNA-seq time-course data
Location overlap analysis for enrichment of genomic ranges
Minor allele frequency data from 1000 Genomes
Minor allele frequency data from 1000 Genomes Phase 3
Minor allele frequency data from NHLBI ESP
Forward Genetic Simulation of Cancer Progresion with Epistasis
An R package of Data Importing, Processing and Analysis for
Opera High Content Screening System
Prediction of pathway-specific protein-protein interaction
networks
Display and manipulate graphs in Cytoscape >= 3.2.1
Visualization of rare variants in whole genome sequencing data
Big Data Management of Genome-Wide Sequence Variants
TCGAbiolinks: An R/Bioconductor package for integrative analysis
with TCGA data
GUI for limma package with Affymetrix microarrays
pseudo-cartesian plot and contingency test on 16S Microbial data
GUI for limma package with two color microarrays
An R package for metabolomic data analysis
Comprehensive Pipeline for Analyzing and Visualizing Agilent and
Affymetrix Array-Based CGH Data
A bioconductor package for exploration of alignment gap
positions from RNA-seq data
A Supra-Hexagonal Map for Analysing Tabular Omics Data
Quantifying and interpreting drivers of variation in complex
gene expression studies
Annotation and gene expression data from Bgee database
Investigates Significance of Clusters by Reducing the Data to
One Dimension to be Able to Easy Set a Score for the
Separation, and a p-Value is then Calculated from Permutations
of the Original Data
An R pipeline for .bed file annotation, statistical comparison
of GO term enrichment between gene sets and data visualisation
Differential splicing and sQTL analyses with
Dirichlet-multinomial model in RNA-Seq
GEO accession data GSE62944 as an ExpressionSet
Interactive HTML graphics for RNA-seq data
An array-like container for convenient access and manipulation
of HDF5 datasets
Linear model and normality based transformation method (Linnorm)
Minor allele frequency data from 1000 Genomes Phase 1
Minor allele frequency data from ExAC subset of non-TCGA exomes
for hs37d5
Minor allele frequency data from ExAC for hs37d5
Implementation of the BRGE's (Bioinformatic Research Group in
Epidemiology from Center for Research in Environmental
Epidemiology) MultiDataSet and MethylationSet
Experimental data and analysis of the chemical-genetic
interaction screen in isogenic HCT116 cell lines
Estimating tumor purity, ploidy, LOH, and SNV status using
hybrid capture NGS data
Display and manipulate graphs in Cytoscape >= 3.3.0
Big Data Management of Whole-genome Sequence Variant Calls
SWATH extended library generation and satistical data analysis
cytofkit: an integrated mass cytometry data analysis pipeline
debrowser: Interactive Differential Expresion Analysis Browser
Differential DNA loop calling from ChIA-PET data
Example ChIA-PET Data for the diffloop Package
Automated Quadratic Characterization of Flow Cytometer
Instrument Sensitivity: Q, B and CV instrinsic calculations
Infrastructure for representing and interacting with the gated
cytometry
A tool for computing genotype-phenotype associations using
statistical learning techniques
an R package for visualization and annotation of phylogenetic
trees with their covariates and other associated data
Testing for association between RNA-Seq and high-dimensional
data
Collection of mature miRNA names of 21 different miRBase release
versions
A collection of gene feature selection and clustering analysis
algorithms
Permutation-Based Confidence for Molecular Classification
Single-cell analysis toolkit for gene expression data in R
R Client for Seven Bridges Platform API and CWL Tool builder in
R
A bioconductor package with minimalist design for drawing
elegant tracks or lollipop plot
Import and summarize transcript-level estimates for gene-level
analysis
support for expression, methylation, DHS for YRI
Annotation and gene expression data retrieval from Bgee database
Cancer subtypes identification, validation and visualization
based on genomic data
The ClusterSignificance package provides tools to assess if
clusters have a separation different from random or permuted
data
Visualize all edges within a KEGG pathway and overlay LINCS data
[option]
Minor allele frequency data from 1000 genomes phase 1 for hs37d5
A workflow to analyse and visualise metabolomics data
Create Classes and Functions for Managing Multiple Assays on
Sets of Samples
Studying patterns in base substitution catalogues
Leveraging Genetic Evidence to Prioritise Drug Targets at the
Gene, Pathway and Network Level
SIMLR: Single-cell Interpretation via Multi-kernel LeaRning
SRGnet An R package for studying synergistic response genes from
transcriptomics data
SVAPLSseq-An R package to adjust for the hidden factors of
variability in differential gene expression studies based on
RNAseq data
Interface to BioMart databases (e.g. Ensembl, COSMIC, Wormbase
and Gramene)
Compare clusterings for single-cell sequencing
Integration of Disease Similarity Methods
A data package containing two flowJo xml workspaces, associated
fcs files and three GatingSets for testing the flowWorkspace
and openCyto packages.
Optimal Gene Extensions From Histone Modification ChIP-seq Data
Evolutionary and plasticity analysis based on orthologous groups
distribution
A tool for quantification of associations between genotypes and
phenotypes with statistical learning techniques such as random
forests and support vector machines as well as with Bayesian
inference using hierarchical models
Summarize, Analyze and Visualize MAF files
A framework for rapid prototyping with binary data on disk
Lasso-Based Methods for Detection of Differential Exon Usage
A Collection of Public Single-Cell RNA-Seq Datasets
Generating Various Molecular Representations for Chemicals,
Proteins, DNAs/RNAs and Their Interactions
Delayed operations on array-like objects
Flexible and Customized Logo Plots using symbols, alphabets,
numbers and alphanumeric strings
Minor allele frequency data from gnomAD release 2.0.1 for hs37d5
Minor allele frequency data from gnomAD exomes release 2.0.1 for
hs37d5
Analysis of co-regulatory network motifs and inference of 'dual
regulons'
Gene-level RNA-seq differential expression and pathway analysis
using Rsubread and the edgeR quasi-likelihood pipeline
SRGnet: An R package for studying synergistic response to gene
mutations from transcriptomics data from transcriptomics data
Identification of cancer cell lines based on their weighted
mutational or variational fingerprint
Targeted Learning for Biomarker Discovery with Moderated
Statistics
Querying annotation data from the high performance Cellbase web
services
Permutation-Based Analysis associating Conserved Differentially
Methylated Elements from One Generation to the Next to a
Treatment Effect
Mixture modeling of single-cell RNA-seq data to indentify genes
with differential distributions
Detecting SNPs with interactive effects on a quantitative trait
Detecting hidden batch factors through data adaptive adjustment
for biological effects
A package to extract spatial features based on multiplex IF
images
An R package to Identify, Annoatate and Visialize Isoform
Switches with Functional Consequences (from RNA-seq data)
Software for the Integration of Multi-omics Experiments in
Bioconductor
S4 implementation of vector-like and list-like objects
Title: SIMLR and CIMLR Multi-kernel LeaRning methods
Representation and manipulation of external sequences
Automated analysis of CRISPR experiments.
Multiple automated functions for cbioportal.org
Differential Methylation Analysis with Targeted Minimum
Loss-Based Estimates of Variable Importance Measures
A R/Bioconductor package for drawing elegant interactive tracks
or lollipop plot to facilitate integrated analysis of
multi-omics data
Data package of high-dimensional cytometry data sets in
SummarizedExperiment and flowSet formats
An R package to Identify, Annotate and Visualize Isoform
Switches with Functional Consequences (from RNA-seq data)
Integrative analysis pipeline for pooled CRISPR functional
genetic screens
Minor allele frequency data from gnomAD release 2.0.1 for GRCh38
Minor allele frequency data from gnomAD exomes release 2.0.1 for
GRCh38
Subread sequence alignment and counting for R
Moderated and Targeted Statistical Learning for Biomarker
Discovery
A tool for quantification of associations between genotypes and
phenotypes with Bayesian inference and statistical learning
techniques
Targeted Variable Importance for Differential Methylation
Analysis
Differential Expression of Small RNA-Seq
Imports a tRNAscan-SE result file as GRanges object
A functional approach to impute Genetically Regulated Expression
An Implementation of Integrated Differential Expression and
Differential Network Analysis for Biomarker Candidate Selection
An R package to Identify, Annotate and Visualize Alternative
Splicing and Isoform Switches with Functional Consequences
(from RNA-seq data)
RNASeqR: RNA-Seq workflow for case-control study
A novel normalization method and differential expression
analysis of RNA-seq d between different species
A Framework for visualizing gene set enrichment throughout
neurodevelopment
tRNA: Analyzing tRNA sequences and structures
PCAtools: everything Principal Components Analysis
A Framework for Consensus and Hierarchical Partitioning
Rcpp (>= 0.12.10), RcppProgress (>= 0.1), doParallel
R (>= 2.2.1), cgh, tilingArray, aCGH, cghMCR, GLAD, papply, GDD, waveslim, cluster, snapCGH, DNAcopy, Hmisc
R (>= 2.2.1), cgh, tilingArray, aCGH, cghMCR, papply, GDD, waveslim, cluster, snapCGH, Hmisc
R (>= 2.2.1), cgh, tilingArray, aCGH, cghMCR, papply, GDD,
waveslim, cluster, snapCGH, Hmisc
R (>= 2.2.1), cgh, tilingArray, aCGH, cghMCR, GLAD, papply, GDD, waveslim, cluster, snapCGH, DNAcopy, Hmisc, Rmpi
R (>= 2.5.0), stats, car, lmtest, sandwich, strucchange, survival, zoo
R (>= 2.5.0), stats, car, lmtest, sandwich, strucchange,
survival, zoo
R (>= 2.5.0), stats, car, Formula (>= 0.2-0), lmtest,
sandwich, strucchange, survival, zoo
R (>= 2.5.0), stats, car (>= 2.0-1), Formula (>= 0.2-0),
lmtest, sandwich, strucchange, survival, zoo
R (>= 2.10.0), stats, car (>= 2.0-1), Formula (>= 0.2-0),
lmtest, sandwich, strucchange, survival, zoo
R (>= 2.13.0), car (>= 2.0-1), lmtest, sandwich, survival, zoo
stats, base, graphics, survival, drgee, R (>= 3.0.0)
stats, base, graphics, survival, drgee, R (>= 3.0.0),
data.table
stats, base, graphics, survival, drgee, stdReg, R (>= 3.3.1),
data.table
stats, base, graphics, survival, drgee, stdReg, R (>= 3.5.0),
data.table, ivtools
R (>= 2.15.0), compiler, HyperbolicDist, RcppArmadillo, sn
R (>= 3.0.0), stats, graphics, leaps, SuppDists
R (>= 3.0.0), stats, graphics, leaps, SuppDists, car
quadprog, graphics, grDevices, shiny, stats, utils
survival, graphics, stats, utils, cmprsk
graphics, stats, utils, survival, cmprsk
R (>= 3.3.2), methods, stats, sp, dplyr,
R (>= 2.15.0), MASS, LearnBayes, methods, graphics
R (>= 2.10), parallel, Formula, data.table, stats, utils
R (>= 2.10), Formula, data.table, stats, utils, parallel
R (>= 3.4.0), Formula, data.table, stats, utils, parallel
R (>= 2.0.0), qtl, gtools, fields, lattice
R (>= 2.10), qtl, gtools, fields, lattice
R (>= 2.10), qtl, gtools, fields, RColorBrewer, lattice
R (>= 2.7.0), DiceDesign, lhs, metRology, msm, sensitivity
imputeYn, glmnet, lars, quadprog, R (>= 3.0.2)
SemiPar, MASS, nlme, cluster, mgcv, splines
R (>= 2.15.3), foreign, utils, Rcpp (>= 0.10.0.4),
RcppArmadillo
R (>= 2.14.0), foreign, utils, Rcpp (>= 0.10.0.4),
RcppArmadillo
R (>= 3.3.0), Rcpp (>= 0.11.3), VGAM, methods, mvtnorm
R (>= 2.13.0), R.matlab, fastICA, tcltk, tkrplot
R (>= 3.6.0), R.matlab, fastICA, tcltk, tkrplot
tcltk (but only for the GUI, all other functions are stand alone)
R (>= 3.4.0), shiny, smacof, scatterplot3d
R (>= 2.10), CORElearn, MASS, plyr, reshape2
R (>= 3.3.0), RColorBrewer, lattice, latticeExtra
R (>= 3.3.0), RColorBrewer, lattice, latticeExtra, kSamples,
RVAideMemoire
cluster, mvtnorm, combinat, fExtremes, R(>= 2.10.0)
compiler, parallel, stats, graphics, methods
R (>= 2.10), proto, cairoDevice, gWidgetsRGtk2, partitions
flexclust, igraph, stringdist, reshape2, lsa
emulator (>= 1.2-13), calibrator (>= 1.2-5), approximator (>=
1.2-6)
R (>= 3.3.0), methods, rjags (>= 3-3), logspline, utils,
lattice
R (>= 2.15.0), edgeR, limma, MASS, parallel, stats, methods
R (>= 3.2.0), parallel, label.switching, methods
R (>= 3.0.0), graphics, nls2, spatstat, stats, vegan
R (>= 3.0.0), graphics, nls2, raster, spatstat, stats, utils,
vegan
R (>= 2.6.0), car, clv, cluster, class, rpart, nnet, rgl,
Rcmdr
R (>= 2.6.0), car, clv, cluster, class, flexclust, rpart,
nnet, rgl, Rcmdr
R (>= 3.0.0), huge, Matrix, igraph, MASS
R (>= 3.0.0), BEDMatrix, LinkedMatrix, symDMatrix
methods, RUnit, MASS, quadprog, corpcor, sn
Rcpp (>= 0.12.7), mvQuad, ucminf, numDeriv, randtoolbox
survival, leaps, robustbase, inline, rrcov
R (>= 3.3.0), RANN, parallel, stats, rdist, matrixStats,
pbapply
R (>= 3.3.0), RANN, parallel, stats, rdist, matrixStats,
pbapply, graphics
R (>= 3.1.1), MASS, compiler, pscl, plyr
R (>= 3.1.1), MASS, compiler, pscl, plyr, batchmeans
R (>= 4.0.0), stats, mvtnorm, spdep, pscl, pbapply, coda
R (>= 2.7.0), mvtnorm, multcomp, gamlss, mratios, MCPAN, pairwiseCI, lattice, geepack, boot
R (>= 2.7.0), mvtnorm, multcomp, gamlss, mratios, MCPAN,
pairwiseCI, lattice, geepack, boot
coda, splines, actuar, BRugs, R2OpenBUGS
R (>= 1.4.1), bayesm, coda, MASS, stats, mice, survival, foreign,nnet
R (>= 1.4.1), bayesm, coda, MASS, stats, mice, survival,
foreign,nnet
utils, BBmisc (>= 1.1), digest, RSQLite, sendmailR, brew
MCMCpack, mvtnorm, truncnorm, Rlab, truncdist, boa
R(>= 3.0.1), MCMCpack, mvtnorm, Rlab, truncdist, truncnorm
coda, reshape, Rook, RJSONIO, pbapply, mvtnorm, Rserve
splines, truncdist, GIGrvg, normalp, gsl
splines, truncdist, GIGrvg, normalp, Formula
R (>= 2.12.1), R2jags, QRM, polspline, MCMCpack
R (>= 3.4.0), foreign, coda, matrixStats, rjags
R (>= 2.14.1), survival, R2jags, car, gplots,lattice
R(>= 2.15.2), lme4 (>= 0.999375-35), MASS, VGAM, mvtnorm,
matrixcalc, coda
R (>= 3.0.0), grDevices, graphics, stats
network, ergm, coda, KernSmooth, mvtnorm, MASS
R (>= 2.11.0), bigmemory, biganalytics, RghcnV3
rexpokit, cladoRcpp, optimx, FD, ape, methods, parallel,
compiler, LaplacesDemon, phylobase
rexpokit, cladoRcpp, ape, phylobase, methods
R (>= 2.7.0), RCurl, XML, RGtk2, gWidgetsRGtk2, lattice
R (>= 2.7.0), RCurl, XML, lattice, gWidgetsRGtk2 (>= 0.0-36)
Epi, msm, mstate, mvna, survival,plyr,ggplot2,reshape
Epi, msm, mstate, mvna,
survival,plyr,ggplot2,reshape,lubridate
R (>= 3.1), bio3d, circular, bigmemory, parallel
R (>= 3.5), bio3d, circular, bigmemory, parallel
imager, HelpersMG (>= 4.7-3), knitr, rmarkdown, R (>= 4.1),
shiny
imager, HelpersMG (>= 4.7), knitr, rmarkdown, R (>= 4.1),
shiny
imager, HelpersMG (>= 5.3-1), knitr, rmarkdown, R (>= 4.1),
shiny
R (>= 3.4.0), MASS, Matrix, igraph, tcltk
R (>= 3.0.0), nortest, xtable, moments, knitr
DiffBind, Rsamtools, DESeq2, lattice, stats, utils, graphics
R (>= 2.10), DiffBind, Rsamtools, DESeq2, lattice, stats,
utils, graphics
R (>= 2.10), survival, Rcpp, data.table, snowfall
R (>= 2.6), quantreg, KernSmooth, nleqslv
R (> 3.0.1), methods, tools, ggplot2, gridExtra, ggrepel
R (> 3.0.1), methods, tools, ggplot2, gridExtra, ggrepel,
multichull
R (> 3.0.1), methods, tools, ggforce, gridExtra, ggrepel,
multichull
R (> 3.0.1), methods, tools, ggforce, gridExtra, ggrepel,
multichull, utils
JGR, XML, lattice, bio.infer, gdata, gmodels, car, MASS, quantreg, rpart
JGR, XML, lattice, bio.infer, gdata, gmodels, car, MASS, quantreg, rpart, rJava
JGR, XML, lattice, bio.infer, gdata, gmodels, car, MASS,
quantreg, rpart, rJava
R (>= 3.0.2), edgeR, data.table, AnnotationDbi
R (>= 2.10.0), coda, evd, MASS, lattice, MCMCpack, spam,
stats4, truncdist
R (> 3.0.1), methods, tools, ggplot2, gridExtra, ggrepel, rgl
R (> 3.2.0), methods, tools, ggplot2, gridExtra, ggrepel
R (> 3.0.1), methods, tools, ggforce, ggrepel, gridExtra
R (>= 2.14), MASS, MatchIt, nnet, numDeriv
R (>= 3.3.2), MASS, MatchIt, nnet, numDeriv, glmnet
R (>= 3.4), MASS, MatchIt, nnet, numDeriv, glmnet
R (>= 1.8.0), mclust, class, tree,mvtnorm
R (>= 2.13.0), mvtnorm, polycor, MASS, psych
R (>= 4.1.0), haven, dplyr (>= 1.0.0), urltools, stringr,
jsonlite
R (>= 2.10), parallel, DNAcopy, DPpackage
R (>= 2.10.0), DBI, RSQLite, RGtk2, ADGofTest
R (>= 2.10.0), DBI, RSQLite, RGtk2, hash, ADGofTest
R (>= 2.10), adlift, nlt, CNLTreg, fields
R (>= 2.10.0), mixdist, mclust, survival
R (>= 2.15.0), mixdist, mclust, survival
R (>= 2.15.0), CNVassocData, mixdist, mclust, survival
R (>= 2.10), parallel, mclust, rlecuyer, stats
hash, gdata, lattice, latticeExtra, oro.nifti
CLSOCP, tseries, outliers, nortest, quadprog, zoo,
preprocessCore, fields, fpc, flexclust, plyr, CONORData
CLSOCP, tseries, outliers, nortest, quadprog, zoo,
preprocessCore, fields, fpc, flexclust, plyr
R (>= 2.10), CLSOCP, tseries, outliers, nortest, quadprog,
zoo, preprocessCore, fields, fpc, flexclust, plyr
Matrix, MASS, ggplot2, grDevices, graphics, stats, methods
R (>= 2.10), Matrix, MASS, ggplot2, grDevices, graphics,
stats, methods
R (>= 3.4.0), maps, qmap, easyVerification
lpSolve, mcclust, moments, DNAcopy, stats, R (>= 2.10)
R (>= 4.0), gmp, igraph, stats, grDevices, graphics
R (>= 4.0), igraph, stats, grDevices, graphics
R (>= 2.0.0), graphics, stats, survival, splines
R (>= 3.5.0), graphics, grid, gridExtra, gtable,
R (>= 3.3), ape, fields, pheatmap, scatterplot3d
R (>= 3.4), ape, fields, pheatmap, scatterplot3d
R(>= 3.0.1), astsa, MASS, class, multitaper
Hmisc, lattice, Matrix, methods, stats, systemfit
Hmisc, lattice, Matrix, methods, stats, systemfit, MASS, RUnit
Hmisc, lattice, Matrix, methods, stats, systemfit, MASS,
RUnit, actuar
Hmisc, lattice, Matrix, methods, stats, systemfit, MASS,
RUnit, actuar, statmod, utils
Hmisc, lattice, grid, methods, stats, systemfit, MASS, RUnit,
actuar, utils, reshape2, cplm (>= 0.6.1), tweedie, Matrix
cplm (>= 0.6.1), lattice, grid, systemfit, MASS, utils
chemometrics, robustbase, RColorBrewer, plyr, pcaPP, mvtnorm,
mvoutlier, pls, lattice, grid, rgl, R.utils, mclust, seriation
chemometrics, robustbase, RColorBrewer, plyr, pcaPP, mvtnorm,
mvoutlier, pls, lattice, grid, rgl, R.utils, mclust, seriation,
ggplot2
chemometrics, robustbase, RColorBrewer, plyr, pcaPP, mvtnorm,
mvoutlier, pls, lattice, grid, rgl, R.utils, mclust, seriation,
ggplot2, amap
ChemometricsWithRData, MASS, nnet, randomForest, ada, rrcov,
sfsmisc, ipred, fastICA, rda, TIMP, class, e1071, rpart,
cluster, msProstate, ALS, ptw, dtw, boot, leaps, lars,
elasticnet, subselect, kohonen, pls, signal, mclust
ChemometricsWithRData (>= 0.1.3), MASS, pls
ChemometricsWithRData (>= 0.1.3), MASS, pls, kohonen
R (>= 2.10), SPEI, chron, weathermetrics
R (>= 3.5.0), stats, utils, graphics, nlme
R (>= 3.5.0), stats, utils, graphics, nlme, Rcpp (>= 0.12.3)
R (>= 3.0), stats, utils, graphics, parallel
R (>= 3.0), stats, utils, graphics, parallel, magrittr, dplyr
R (>= 2.2.4), Rcpp, clusterCrit, cluster, WeightedCluster
R (>= 2.2.4), Rcpp, clusterCrit, cluster, copula (>= 0.999),
WeightedCluster
R (>= 2.0.0), dynamicGraph (>= 0.2.0), MASS, methods
R (>= 2.10.0), dynamicGraph (>= 0.2.0), MASS, methods, CoCo
R (>= 3.4.0), ggplot2, pracma, methods, moments, reshape2
R (>= 3.6.0), ggplot2, pracma, nloptr, data.table, methods,
stats
R (>= 3.5.0), ggplot2, nloptr, data.table, methods, stats
R (>= 2.4.0), fda, MASS, odesolve, Matrix, SparseM
R (>= 2.4.0), fda, MASS, odesolve, Matrix, spam
R (>= 2.4.0), fda, MASS, deSolve, Matrix, spam
R (>= 2.10), vegan, ape, picante, adespatial, betapart
R (>= 3.1), methods, utils, MASS, graphics, stats
survival, MASS, wesanderson, reshape2, stats, graphics,
methods, Matrix
Benchmarking, psych, boot, lpSolve, spdep
graphics, grDevices, stats, utils, coneproj
graphics, grDevices, stats, utils, coneproj (>= 1.12)
R (>= 2.5.0), tcltk, tkrplot, lattice, grDevices
R (>= 2.10), statmod, matlab, tensor, mc2d
R (>= 2.14.0), survival, Matrix, prodlim
R (>= 3.0.2), rJava (>= 0.8-3), CommonJavaJars (>= 1.0.5),
JavaGD, ggplot2
MissMech, kSamples, sfsmisc, Rmpfr, parallel
R (>= 4.0.0), jsonlite, rmarkdown, openssl, utils
R (>= 4.0.0), jsonlite, rmarkdown, gdata, openssl, Biobase
R (>= 4.0.0), jsonlite, rmarkdown, openssl, utils, Biobase
R (>= 2.0.1), MASS, rpart, randomForest, boot, nlme, survival
R (>= 2.10.0), MASS, rpart, randomForest, boot, survival
R (>= 2.10.0), MASS, lattice, latticeExtra, rpart,
randomForest, boot, survival
R (>= 2.14.2), geiger, caper, ape, deSolve, matrixStats
R (>= 3.0), geiger, caper, ape, deSolve, matrixStats
effects, sm, MASS, nnet, splines, pscl, gdata
car, effects, lattice, sm, MASS, nnet, splines, pscl, gdata,
xtable
R (>= 2.11.0), xtable, akima, R.oo, R.methodsS3, matlab,
lattice, locfit, graphics, grDevices, grid
R (>= 2.10), igraph, limma, org.Hs.eg.db
R (>= 3.1.0), stats, MASS, Ecdat, interval
R (>= 3.1.0), stats, MASS, interval, Formula
R (>= 3.5.0), stats, MASS, interval, Formula
R (>= 2.10), parallel, sp, spacetime, DCluster
R (>= 2.10), rgl (>= 0.96.0), methods, stats, grDevices,
penalized, VGAM, grid, gridBase, plotrix
R (>= 3.1.0), minpack.lm, numDeriv, stats
R (>= 3.1.0), minpack.lm, numDeriv, stats, forecast, reshape2,
deSolve
R (>= 3.2.1), minpack.lm, numDeriv, stats, forecast, reshape2,
deSolve
R (>= 2.10.0), methods, snowfall, boot, MASS
R (>= 2.10.0), methods, snowfall, boot, MASS, parallel
R (>= 3.2.3), raster, sp, rgdal, methods
GOSim, SubpathwayMiner, dynamicTreeCut, moduleColor, RBGL,
graph
R (>= 2.10), GOSim, SubpathwayMiner, dynamicTreeCut,
moduleColor, RBGL, graph, Rgraphviz
R (>= 2.10), GOSim, dynamicTreeCut, moduleColor, RBGL, graph,
Rgraphviz
Rcpp (>= 0.12.4), truncdist, DPpackage, matrixStats
Rcpp (>= 0.12.4), truncdist, matrixStats
Rcpp (>= 0.12.4), truncdist, DPpackage (>= 1.1-7.4),
matrixStats
R (>= 2.10), MASS, nlme, survival, splines
R (>= 2.10.0), readbitmap, caTools, graphics, stats
R (>= 2.10.0), readbitmap, graphics, stats
R (>= 3.5.0), parallel, readbitmap, graphics, stats
R (>= 3.4.0), limma, utils, grDevices, DESeq2
R (>= 3.5.0), limma, utils, grDevices, DESeq2,
SummarizedExperiment
R (>= 2.0.0), spatstat, RandomFields, gpclib, mgcv
R (>= 2.0.0), spatstat (>= 1.22-0), RandomFields, mgcv
R (>= 2.0.0), spatstat (>= 1.22-0), RandomFields
shapefiles, splancs, mrds, mgcv, methods
graphics, splancs, mrds, mgcv, shapefiles, methods
survival, ggplot2, grid, aod, proto, R (>= 3.0.2)
survival, ggplot2, gridExtra, aod, proto, R (>= 3.1.0)
R (>= 2.10.0), fda, splines, Matrix, graphics, R.cache
R (>= 2.10.0), fda, splines, Matrix, graphics, R.cache,
deSolve
R (>= 2.10.0), fda, splines, Matrix, graphics, deSolve
R (>= 3.5), fda, splines, graphics, deSolve, knitr, rmarkdown
readxl, plyr, tools, xlsx, rChoiceDialogs
Deducer, psych, GPArotation, mvnormtest, irr
Deducer, psych, GPArotation, mvnormtest, irr, klaR
Deducer (>= 0.5-0), sp, maptools, OpenStreetMap
JavaGD (>= 0.6-0), Deducer (>= 0.7-4), sp, maptools,
OpenStreetMap, scales, rgdal
R (>= 2.10.0), Deducer (>= 0.7-0), tm, wordcloud (>= 2.1),
Snowball, RColorBrewer
R (>= 2.10.0), Deducer (>= 0.7-0), tm, wordcloud (>= 2.1),
RColorBrewer
R (>= 2.15.0), fts, sfsmisc, vegan, mlogit
R (>= 3.0.0), ggplot2, Rcpp (>= 0.11.2), rrcov, np, methods,
MASS
R (>= 3.0.0), ggplot2, Rcpp (>= 0.11.2), rrcov, methods, MASS,
np
grid, reshape (>= 0.7.1), ggplot2 (>= 0.8.3), proto
matrixStats, pcaPP (>= 1.8-1), robustbase, MASS
R (>= 2.7.1),epitools,epicalc, TeachingDemos, tcltk
R (>= 2.7.2),epitools,epicalc, TeachingDemos, tcltk
R (>= 2.7.2),epitools, epicalc, TeachingDemos, tcltk, AMORE
R (>= 2.7.2),epitools,epicalc, TeachingDemos, tcltk, AMORE
R (>= 2.7.2),epitools, TeachingDemos, tcltk, AMORE,utils
DiceKriging (>= 1.2), rgenoud, MASS, lhs
DiceKriging (>= 1.2), rgenoud, MASS, lhs, mnormt
methods, utils, stats, grDevices, DiceKriging, DiceEval, rgl
methods, utils, stats, grDevices, graphics, rgl,
scatterplot3d, DiceKriging, DiceEval
methods, utils, stats, grDevices, graphics, DiceKriging,
DiceEval
R (>= 2.4.0), stats, lattice, PolynomF, fda
R (>= 2.14.0), maptools, spatstat, spdep
R(>= 2.8.0), stats, relimp, utils, graphics, tcltk, vcd
R(>= 2.10.0), stats, relimp, utils, graphics, tcltk, vcd
R(>= 2.10.0), stats, relimp, utils, graphics, tcltk, vcd,
conf.design
R(>= 2.8.0), stats, utils, graphics, tcltk, vcd
lattice, mvtnorm, numDeriv, R (>= 2.4.1)
graphics, grDevices, stats, utils, coneproj, Matrix, MASS
graphics, grDevices, stats, utils, coneproj (>= 1.12), Matrix,
MASS
separationplot, ensembleBMA, plyr, methods, Hmisc
separationplot, ensembleBMA, plyr, methods, Hmisc, abind
stats, graphics, separationplot, plyr, methods, Hmisc, abind
R (>= 3.5.0), ROCR, methods, BEDMatrix, data.table
R (>= 2.15.3), lpSolve, geometry, vertexenum, MASS
R (>= 2.10.0), graph,Biobase (>=
2.0.0),DBI,RSQLite,AnnotationDbi (>= 1.7.19),GO.db (>=
1.13.0),SparseM (>= 0.73),topGO,grid,Rgraphviz,Category (>=
2.3.26),GOstats,org.Hs.eg.db
R (>= 2.10.0), locfit, lattice, latticeExtra, grid, xlsx
R (>= 2.10.0), locfit, lattice, latticeExtra, xlsx
cluster, Hmisc, heatmap.plus, FactoMineR, GOstats, survival,
multtest, gcrma, rgl, GSA, RankProd, siggenes, MASS, biomaRt,
xtable, AnnotationDbi
cluster, heatmap.plus, FactoMineR, GOstats, survival,
multtest, gcrma, rgl, GSA, RankProd, siggenes, MASS, biomaRt,
xtable, AnnotationDbi
R (>= 2.10), cluster, heatmap.plus, FactoMineR, GOstats,
survival, multtest, gcrma, rgl, GSA, RankProd, siggenes, MASS,
biomaRt, xtable, AnnotationDbi
R (>= 2.10), cluster, heatmap.plus, FactoMineR, GOstats,
survival, multtest, gcrma, GSA, siggenes, MASS, biomaRt,
xtable, AnnotationDbi
R (>= 3.0.1), GPArotation, limSolve, shape
R (>= 3.2.1), GPArotation, limSolve, shape, shiny
dismo, raster, rJava (>= 0.5-0), methods, R (>= 2.10)
dismo, methods, rJava (>= 0.5-0), parallel, raster, R (>=
2.10)
dismo, methods, rJava (>= 0.5-0), parallel, R (>= 2.10)
Hmisc, vcd (>= 1.2-11), gWidgets (>= 0.0-45), gWidgetstcltk
(>= 0.0-44), RColorBrewer
Hmisc, vcd (>= 1.2-11), gWidgets (>= 0.0-45), gWidgetstcltk
(>= 0.0-44), RColorBrewer, Rcmdr
R (>= 3.6.0), foreach, randomForest, doRNG
CDVine, ggplot2, gridExtra, reshape2, ycinterextra
R (>= 3.3.0), stats, graphics, utils, maps
R (>= 3.4), shinyFiles, ggplot2, ggthemes
R (>= 3.5), shinyFiles, ggplot2, ggthemes
R (>= 3.6), shinyFiles, ggplot2, ggthemes
R (>= 3.5), shinyFiles, shinyBS, ggplot2, ggthemes
R (>= 3.6), shinyFiles, shinyBS, ggplot2, ggthemes
R (>= 3.6), shinyFiles, shinyBS, ggplot2, ggthemes, plotly
R (>= 4.0), shinyFiles, shinyBS, ggplot2, ggthemes, plotly
R (>= 2.14.0), lhs, pls, mnormt, MASS, parallel
R (>= 2.15.0), lhs, pls, mnormt, MASS, parallel, abc
R (>= 2.10), operators, topmodel, DEoptim
R (>= 2.10), operators, topmodel, DEoptim, XML
Rcpp (>= 0.11.5), methods, editrules, graphics, utils
Rcpp (>= 0.11.5), methods, editrules, graphics, utils, igraph
Rcpp, methods, editrules, graphics, utils, igraph
methods, foreach, parallel, doParallel, lattice, shiny
stats, utils, graphics, dendextend, ggplot2, ggdendro, seqinr,
R (>= 3.3.2)
R(>= 3.3), changepoint(>= 2.2.2), forecast, grDevices, MASS,
methods, stats, utils, zoo
R(>= 3.3), changepoint(>= 2.2.2), grDevices, MASS, methods,
stats, utils, zoo
R (>= 3.1.1), IDPmisc, stats, utils, graphics, grDevices
R(>= 2.15.0), igraph, plyr, R2HTML, graphics, methods
R(>= 2.15.0), igraph0, plyr, R2HTML, graphics, methods
R(>= 2.15.1), igraph0, plyr, R2HTML, graphics, methods, Rcpp
(>= 0.9.13)
ggplot2, dplyr, ISOweek, scales, timeDate
graphics, grDevices, stats, utils, R (>= 3.2.0)
coda, graphics, grDevices, stats, utils, R (>= 3.2.0)
coda, adaptMCMC, LaplacesDemon, graphics, stats, utils, R (>=
3.5.0)
graphics, stats, utils, coda, parallel, R (>= 3.4.0), igraph
graphics, stats, utils, coda, parallel, R (>= 3.5.0)
R (>= 2.8.0), lme4, mvtnorm, Matrix, lattice
R (>= 3.3.0), stats, DEoptim, boot, numDeriv, BBmisc
R (>= 3.3.0), DEoptim, boot, numDeriv, BBmisc
R (>= 3.0.0), DEoptim, survival, stringr, BBmisc
shiny, VGAM, data.table, plyr, methods, clinfun
CORElearn (>= 1.47.0),semiArtificial (>= 2.0.0)
R (>= 2.6.0), methods, rgenoud (>= 5.4-7), gWidgetsRGtk2, stats4
R (>= 2.7.0), methods, rgenoud (>= 5.4-7), gWidgetsRGtk2 (>= 0.0-31), stats4, rrcov, Matrix
R (>= 2.7.0), methods, rgenoud (>= 5.4-7), gWidgetsRGtk2 (>=
0.0-31), stats4, rrcov, Matrix
R (>= 2.7.0), methods, rgenoud (>= 5.4-7), gWidgetsRGtk2 (>=
0.0-31), stats4, rrcov, Matrix, jit
R (>= 3.2.2), KernSmooth, kerdiest, nlme
R (>= 3.0), stats, graphics, methods, Rcpp
R(>= 3.6.0), tiff, stringr, bitops, fields
R (>= 2.4.0), methods, kinship, MASS, hapsim
R (>= 2.12.0), methods, graphics, R2HTML, tcltk, tkrplot
R (>= 2.10), methods, graphics, tcltk, tkrplot, R2HTML
R (>= 2.10), methods, graphics, tcltk, R2HTML
R (>= 3.5.0), utils, stats, rvest, xts, xml2, zoo, plyr
Icens, interval, MLEcens, PwrGSD, MASS, KMsurv
methods, R(>= 2.1.0), graphics, stats, lattice(>= 0.12)
methods, R(>= 2.3.0), graphics, stats, lattice(>= 0.13-8)
methods, R(>= 2.4.0), graphics, stats, lattice(>= 0.13-8)
methods, R(>= 2.2.0), FLCore(>= 1.2-0), lattice
methods, R(>= 2.5.0), FLCore(>= 1.4-4), lattice
R (>= 2.6), deSolve, rootSolve, minpack.lm, MASS, coda
R (>= 2.11), methods, quadprog, Rglpk, timeSeries
R (>= 3.1.3), methods, cccp, Rglpk, timeSeries
R (>= 2.10), CompQuadForm, SKAT, Matrix, MASS, mvtnorm
R (>= 2.7.0), ade4, xtable, scatterplot3d,KernSmooth
R (>= 3.5.0), statmod, abind, utils, polycor
R (>= 3.5.0), statmod, abind, utils, polycor, VineCopula,
matlab
FactoMineR (>= 2.0),shiny,FactoInvestigate (>= 1.5),ggplot2
FactoMineR (>= 2.3),shiny,FactoInvestigate (>= 1.5),ggplot2
R(>= 3.0.0), base, MASS, truncnorm, survival, kinship2
R (>= 1.8.0), kinship2, paramlink, Rsolnp
R (>= 3.6.0), Biostrings, seqRFLP, stringi
R (>= 3.0.0), methods, maps, mapdata, proj4, geoR
R (>= 3.0.0), methods, maps, mapdata, proj4, geoR, sp
R (>= 3.0.0), maps, mapdata, proj4, sp, geoR
R (>= 3.0.0), methods, maps, mapdata, proj4
R (>= 2.0.0), methods, rgl, RColorBrewer
zoo, fUtilities, chron, polynom, fUnitRoots
R (>= 2.0.0), lattice, leaps, ltsa, bestglm
R(>= 2.7.0), BsMD, scatterplot3d, igraph
R(>= 2.7.0), BsMD, scatterplot3d, igraph, sfsmisc
R(>= 2.7.0), BsMD, scatterplot3d, igraph, sfsmisc, DoE.base
R(>= 2.8.0), BsMD, scatterplot3d, igraph, sfsmisc, DoE.base
R(>= 2.8.0), BsMD, scatterplot3d, igraph, sfsmisc, DoE.base
(>= 0.11)
R(>= 2.10.0), BsMD, scatterplot3d, igraph, sfsmisc, DoE.base
(>= 0.11)
R(>= 2.10.0), BsMD, scatterplot3d, igraph, DoE.base (>=
0.22-8)
R(>= 2.10.0), BsMD, scatterplot3d, igraph, DoE.base (>= 0.11)
R(>= 2.10.0), BsMD, scatterplot3d, igraph, DoE.base (>=
0.23-1)
R(>= 2.10.0), BsMD, scatterplot3d, igraph0, DoE.base (>=
0.23-2)
R(>= 2.10.0), BsMD, scatterplot3d, igraph, DoE.base (>=
0.23-2)
R (>= 3.1), methods, smacof, vegan, ellipse
R (>= 2.4.0), ade4, cluster, Hmisc, nlme, sna, Cairo
R (>= 2.6.0), ade4, cluster, Hmisc, nlme, sna, Cairo
R (>= 2.10), ade4, cluster, Hmisc, nlme, sna, Cairo
R (>= 2.5.0), ade4, cluster, Hmisc, nlme, sna, Cairo
R (>= 2.12.0), base, methods, grDevices, graphics, stats
R (>= 2.12.0), methods, grDevices, graphics, stats
R (>= 3.0.0), methods, grDevices, graphics, stats
R (>= 2.15.0), MultinomialCI, parallel, FuzzyNumbers, DEoptim
R (>= 2.15), methods, foreach, iterators
R (>= 3.0), methods, foreach, iterators, doRNG (>= 1.6)
R (>= 2.7.0), stats, matrixStats, R.methodsS3
R (>= 3.5.0), sp, tidyverse, classInt, sf, rgdal
R (>= 2.4.0), splines, akima, gam, mlbench, caTools
R (>= 2.4.0), splines, gam, mlbench, caTools
R (>= 2.10), Rsolnp, methods, MASS, xts, numDeriv, zoo
CGE, data.tree, DiagrammeR, graphics, stringr
R (>= 2.14.0), methods, utils, grDevices,MASS,GENEAread,
changepoint,signal,rpart
R (>= 2.14.0), methods, utils, grDevices, MASS, GENEAread,
changepoint, signal, rpart
R (>= 2.12), geomapdata, RPMG, akima, splancs
R (>= 2.10), geomapdata, RPMG, akima, splancs
R (>= 2.12), geomapdata, RPMG, splancs, MBA
affy, topGO, plotrix, KEGG.db, hgu95av2.db
R (>= 2.9.2), RODBC, deldir, rgl, tcltk, tkrplot
stats, utils, GENEAread, matlab, R (>= 2.10)
mvtnorm, lars, mvbutils (>= 2.0), gtools
R (>= 2.15.0), maptools, RColorBrewer, MASS, rgeos
R (>= 2.15.0), maptools, sp, RColorBrewer, MASS, rgeos
cluster, grDevices, graphics, stats, spacefillr
GLDEX (>= 2.0.0.1), grDevices, graphics, stats
GLDEX (>= 2.0.0.4), grDevices, graphics, stats
GLDEX (>= 2.0.0.5), grDevices, graphics, stats
GLDEX (>= 2.0.0.5), ddst, grDevices, graphics, stats
R (>= 2.8.0), coda (>= 0.11-3), MCMCpack, mvtnorm, lattice,
msm, MASS, Matrix, accuracy, kinship, panel, bayesSurv
R (>= 2.6.0), alabama, nleqslv, BB, SQUAREM
R (>= 3.0.0), alabama, nleqslv, BB, SQUAREM
R (>= 3.0.0), alabama, nleqslv, BB, SQUAREM, methods
R (>= 2.6.0), GO.db (>= 2.2.0), AnnotationDbi, annotate, org.Dm.eg.db, org.Hs.eg.db, org.Mm.eg.db, org.Pf.plasmo.db, org.Rn.eg.db, org.Sc.sgd.db, topGO, cluster (>= 1.11.7), mclust (>= 3.1), RBGL, graph
R (>= 2.6.0), GO.db (>= 2.2.0), AnnotationDbi, annotate, org.Dm.eg.db, org.Hs.eg.db, org.Mm.eg.db, org.Pf.plasmo.db, org.Rn.eg.db, org.Sc.sgd.db, topGO, cluster (>= 1.11.7), mclust (>= 3.1), RBGL, graph, Matrix, corpcor
R (>= 2.7.0), GO.db (>= 2.2.0), AnnotationDbi, annotate,
topGO, cluster (>= 1.11.7), flexmix, RBGL, graph, Matrix,
corpcor, org.Hs.eg.db
R (>= 2.7.0), GO.db (>= 2.2.0), AnnotationDbi, annotate,
topGO, cluster (>= 1.11.7), flexmix, RBGL, graph, Matrix,
corpcor, org.Hs.eg.db, igraph0
R (>= 2.7.0), GO.db (>= 2.2.0), AnnotationDbi, annotate,
topGO, cluster (>= 1.11.7), flexmix, RBGL, graph, Matrix,
corpcor, org.Hs.eg.db, igraph
R (>= 2.7.0), GO.db (>= 2.2.0), AnnotationDbi, annotate,
topGO, cluster (>= 1.11.7), mclust (>= 3.1), RBGL, graph,
Matrix, corpcor, org.Hs.eg.db
ggplot2, ggdendro, grid, gridExtra, RColorBrewer, R (>= 3.0.3)
R (>= 2.7.0), randtoolbox, orthopolynom, ks, lars
R (>= 2.14.1), Rcpp (>= 0.9.8), RcppArmadillo (>= 0.2.34),
MASS, methods, ggplot2
Nozzle.R1, MASS, proftools, Rgraphviz, graph
vegan, ape, matrixStats, stats, R (>= 3.1.0)
matrixStats, Matrix, vegan, ape, parallel, stats, utils, R (>=
3.1.0)
R(>= 2.9.0), geepack, survival, methods, nlme, lattice
R (>= 3.0.0),maptools (>= 0.5-2), robustbase,sp
R (>= 3.0.0),maptools (>= 0.5-2), robustbase,sp,Rcpp
R (>= 3.0.0),maptools (>= 0.5-2), robustbase,sp,Rcpp, spdep
R (>= 3.0.0),maptools (>= 0.5-2), robustbase,sp,Rcpp,
spatialreg
R (>= 3.0.0),maptools (>= 0.5-2),
robustbase,sp,Rcpp,spatialreg
R (>= 3.0.0),maptools (>= 0.5-2), robustbase,sp (>
1.4-0),Rcpp,spatialreg
lpSolveAPI, combinat, gtools, ineq, kappalab
R (>= 3.0.1), Rcpp (>= 0.12.1), splines, stats, utils, Matrix,
methods, Rmpfr
R (>= 2.3.1), methods, genetics, haplo.stats
R (>= 2.4.0), methods, genetics, haplo.stats, qvalue, MASS
R (>= 2.4.0), methods, genetics, haplo.stats, MASS
R (>= 2.15.0), methods, MASS, utils, GenABEL.data
R (>= 2.10), stats, dplyr, doParallel, ggplot2, foreach,
parallel, methods
R (>= 1.9.0), e1071, GeneTS, graph, RBGL
R(>= 2.10.0), SKAT, Matrix, MASS, seqminer, data.table
R (>= 4.1.0), GPvecchia,fields, mapproj, plot3D, shape
R (>= 4.0.5), GPvecchia,fields, mapproj, shape, codetools
R (>= 4.1.0), GPvecchia,fields, mapproj, shape, codetools
R (>= 2.2.1), tcltk, maptools, fields, splancs, KernSmooth, stats
R (>= 2.2.1), tcltk, maptools, fields, splancs, KernSmooth, stats, rgdal
R (>= 2.4.0), fields, KernSmooth, rgdal, rgl, spdep, splancs, stats, tcltk
R (>= 2.7.0), fields, KernSmooth, mvoutlier, rgl, robustbase,
spdep, splancs, stats, tcltk
R (>= 2.7.0), fields, KernSmooth, mvoutlier, rgeos, rgl,
robustbase, spdep, splancs, stats, tcltk
R (>= 2.7.0), quantreg, KernSmooth, mvoutlier, rgeos, rgl,
robustbase, spdep, splancs, stats, tcltk
R (>= 3.5.0), shiny, agricolae, ggplot2, dplyr
shiny, agricolae, ggplot2, dplyr, R (>= 3.5.0)
R (>= 2.11.0),R.utils, R.oo, R.methodsS3, abind, ncdf
R (>= 2.11.0), R.utils, R.oo, R.methodsS3, abind, ncdf
R(>= 3.5.0), Matrix, CVXR, Rdsdp, gtools, seqminer
R (>= 3.2.1), methods, stats, EBImage, png, parallel,
doParallel, foreach
R (>= 3.5.0), Matrix, glmnet, stats, ggplot2
R (>= 3.2.0), rJava (>= 0.9-6), GreedyExperimentalDesignJARs
(>= 1.0)
R (>= 4.0.0), dplyr, Metrics, cmna, plotly
R (>= 2.14.0), bnlearn, ClustOfVar, PCAmixdata, arules, zoo
R (>= 3.5.0), bnlearn, ClustOfVar, PCAmixdata, arules, zoo
methods, MASS, fBasics, maps, stats, graphics,grDevices,utils
R (>= 3.5.0), mvtnorm, ggplot2, survival,
R (>= 2.10), mvtnorm, ggplot2, survival,
R (>= 2.4.1), lattice, stats, grid, multcomp (>= 0.991-7),
mvtnorm, methods
R (>= 2.3.0), lattice, stats, grid, multcomp, mvtnorm
R (>= 2.4.0), lattice, stats, grid, multcomp, mvtnorm
R (>= 2.5.0), lattice, stats, grid, multcomp (>= 0.991-7),
mvtnorm, methods
R (>= 2.5.0), lattice, stats, grid, multcomp (>= 0.991-7),
mvtnorm, methods, leaps
R (>= 2.5.0), lattice, stats, grid, multcomp (>= 1.1-2),
mvtnorm, methods, leaps
R (>= 2.13.0), lattice, stats, grid, multcomp (>= 1.1-2),
mvtnorm, methods, leaps, RColorBrewer, latticeExtra
R (>= 2.14.1), lattice, stats, grid, multcomp (>= 1.1-2),
mvtnorm, methods, leaps, RColorBrewer, latticeExtra
R (>= 2.14.1), lattice, stats, grid, multcomp (>= 1.1-2),
mvtnorm, methods, leaps, RColorBrewer, latticeExtra, reshape,
colorspace
R (>= 2.14.1), lattice, stats, grid, latticeExtra, multcomp
(>= 1.1-2)
R (>= 3.0.2), lattice, stats, grid, latticeExtra, multcomp
R (>= 3.0.2), lattice, stats, grid, latticeExtra, multcomp,
gridExtra
R (>= 3.0.2), lattice, stats, grid, latticeExtra, multcomp,
gridExtra, graphics
R (>= 3.0.2), lattice, stats, grid, latticeExtra, multcomp,
gridExtra (>= 2.0.0), graphics
methods, lme4, MASS, ggplot2, plyr, reshape
matrixcalc, mvtnorm, foreach, doParallel, copula
R (>= 2.10.0), lattice, MCMCpack, maxLik, binomSamSize, Hmisc,
zipfR, vegan, dirmult
R (>= 2.12.0), methods, AnnotationDbi (>= 1.9.7)
R (>= 2.15), methods, AnnotationDbi (>= 1.9.7)
R (>= 2.13.1), AnnotationDbi, HPO.db, igraph
MASS, mvtnorm, corpcor, numDeriv, stats, boot
R (>= 3.0.0), MASS, matrixcalc, plyr, ggplot2, reshape2
R (>= 3.4.0), MASS, matrixcalc, plyr, ggplot2
R (>= 2.10), KernSmooth, grDevices, graphics, splines, stats
R (>= 2.2.0), lattice, MASS, scatterplot3d (>= 0.3-23)
R (>= 3.5.0), ncvreg, glmnet, quadprog, Matrix
R (>= 2.5.0), lattice, coda, MASS, MCMCpack
R (>= 2.15.0), lattice, coda, MASS, MCMCpack
R (>= 2.15.1), lattice, coda, MASS, MCMCpack
R (>= 2.15.2), lattice, coda, MASS, MCMCpack
R (>= 3.0.1), lattice, coda, MASS, MCMCpack
R (>= 3.1.2), lattice, coda, MASS, MCMCpack
R (>= 3.5.0), lattice, coda, MASS, MCMCpack
R (>= 2.10.0), plotrix, ggplot2, RColorBrewer
MASS, mgcv, filehash, snowfall, GenABEL, DatABEL, tools
MASS, mgcv, parallel, GenABEL, DatABEL, tools, filehash
methods,utils, R (>= 2.6.0), pedigree (>= 1.2)
methods,utils, R (>= 2.6.0), pedigree (>= 1.1)
R (>= 2.10.0), energy, FNN, orthopolynom
lme4, coda, R (>= 4.1), MASS, ggplot2, rlang
R (>= 4.1), MASS, ggplot2, rlang, coda, Matrix
R (>= 3.2.0), GenomicRanges, Matrix, glmnet, rtracklayer
RFOC, grid, RColorBrewer, rgl, xtable, bipartite
R (>= 2.4.0), methods, survival, Formula
methods, cluster, grid, lattice, survival, Formula
methods, grid, lattice, survival (>= 2.37-6), Formula
methods, grid, lattice, survival (>= 2.37-6), Formula, ggplot2
grid, lattice, survival (>= 2.37-6), Formula, ggplot2
lattice, survival (>= 2.37-6), Formula, ggplot2 (>= 2.0)
lattice, survival (>= 2.40-1), Formula, ggplot2 (>= 2.0)
lattice, survival (>= 2.40-1), Formula, ggplot2 (>= 2.2)
lattice, survival (>= 3.1-6), Formula, ggplot2 (>= 2.2)
methylumi, amap, Hmisc, gplots, plotrix, WriteXLS, tcltk
methylumi, lumi, amap, Hmisc, gplots, plotrix, WriteXLS, tcltk
R (>= 2.13.0), methylumi, lumi,
IlluminaHumanMethylation27k.db,
IlluminaHumanMethylation450k.db, amap, Hmisc, gplots, plotrix,
WriteXLS, tcltk2
R (>= 2.12.0), methylumi, lumi,
IlluminaHumanMethylation27k.db,amap, Hmisc, gplots, plotrix,
WriteXLS,tcltk2
R (>= 2.12.0), methylumi, lumi,
IlluminaHumanMethylation27k.db,IlluminaHumanMethylation450k.db,amap,
Hmisc, gplots, plotrix, WriteXLS,tcltk2
R (>= 2.0.1), MASS, utils, stats, cluster
R (>= 2.0.1), utils, stats, MASS, cluster
R (>= 2.0.1), utils, stats, MASS, cluster, fastcluster
doParallel, foreach, parallel, R (>= 2.10)
R (>= 3.1.0), Matrix, MASS, glmnet, pscl, GIGrvg
R (>= 3.1.0), multcomp, depthTools, fda.usc, MASS
R (>= 3.1.0), lattice, multcomp, depthTools, fda.usc, MASS,
stats
R (>= 3.5.0), Matrix, MCMCpack, sp, spdep
R (>= 3.4.3), MASS, survival, stats, utils
R (>= 3.6.0), ggplot2, dplyr, survival, gridExtra,readbitmap
R (>= 2.1.0), car (>= 1.0-15), grDevices, tcltk, utils
R (>= 2.10.0), neldermead, Rmpi, papply, signal, outliers
R (>= 2.12.0), neldermead, Rmpi, papply, signal, outliers
R (>= 2.10.0), ff, neldermead, Rmpi, papply, signal, outliers
igraph, colorspace, geosphere, rworldmap, ggplot2, plyr
igraph0, colorspace, geosphere, rworldmap, ggplot2, plyr
ReadImages, png, maps, tcltk, tkrplot, methods
prettyGraphs (>= 2.0.0), ExPosition (>= 2.0.0)
prettyGraphs (>= 2.1.4), ExPosition (>= 2.0.0)
R (>= 2.15.0), rJava, coda, ggplot2, InterVA5
R (>= 3.5.0), rJava, coda, ggplot2, InterVA5
R (>= 2.3.0), xtable, CompQuadForm, MASS, Runuran, parallel
R (>= 2.6.0), xtable, CompQuadForm, MASS, Runuran, parallel
R (>= 2.14), MASS, NMF, mclust, cluster, InterSIM
R (>= 3.5), MASS, NMF, mclust, cluster, InterSIM
R (>= 3.5.0), methods, grDevices, graphics, stats
glmnet, mboost, linprog, parallel, RColorBrewer
R (>= 3.0.0), grDevices, graphics, stats, utils
fgui, runjags, ellipse, plotrix, colorspace
fgui, tools, runjags, coda, lattice, ellipse, plotrix,
colorspace
R (>= 3.0.0), Rcpp, plyr, lme4, doParallel
R (>= 3.0.0), Rcpp, plyr, lme4, reshape2
R (>= 2.14.0), survival (>= 2.37-2), randtoolbox, stringr,
marqLevAlg (>= 2.0.6)
R(>= 2.5.0), MASS, nlme, splines, survival
R (>= 2.5.0), MASS, nlme, splines, survival
R (>= 2.7.0), MASS, nlme, splines, survival
R (>= 2.9.0), MASS, nlme, splines, survival
R (>= 2.10.0), MASS, nlme, splines, survival
R (>= 2.11.0), MASS, nlme, splines, survival
R (>= 2.12.0), MASS, nlme, splines, survival
R (>= 2.14.0), MASS, nlme, splines, survival
R (>= 3.0.0), MASS, nlme, splines, survival
R (>= 2.14.0), MASS, nlme, splines, survival, rjags, coda
R (>= 3.1.2), MASS, nlme, splines, survival
R (>= 3.0.0), nlme, splines, statmod, survival
R (>= 3.2.0), lme4, survival, splines, statmod
R (>= 3.0.0), lpSolve, pcaPP, igraph, parallel
R (>= 3.4.4), lpSolve, pcaPP, igraph, parallel, JGL
maptools, sp, rgeos, gpclib, PresenceAbsence, R(>= 2.15.0)
maptools, sp, rgeos, PresenceAbsence, R(>= 2.15.0)
R (>= 2.15.0), plyr, evmix, MASS, corpcor
R (>= 2.15.0), plyr, evmix, MASS, ks, sparr
R(>= 3.5.0), Matrix, seqminer, bigmemory
R (>= 3.0), fossil, plotrix, sp, splancs, vegan
R (>= 3.0), fossil, mgcv, plotrix, sp, vegan
DiceKriging, rgenoud, MASS, lhs, pbivnorm, randtoolbox,
DiceView
e1071, caret, nnet, MASS, caTools, mda, glmnet, randomForest,
mvpart
Matrix (>= 1.2-10), MASS, mstate, colorspace
CompQuadForm, SKAT, geeM, splines, mvtnorm
R (>= 2.14.1), sn, moments, BB, Bolstad2, optimx, Rmpfr
sn, moments, BB, Bolstad2, optimx, agsemisc, MASS, Rmpfr
R (>= 2.10), rootSolve, XLConnect, digest
R (>= 2.10), rootSolve, XLConnect, digest, svDialogs, ggtern
R (>= 1.8.0), Biobase, multtest, genefilter, survival, reposTools
R (>= 2.0.0), Biobase, multtest, survival
R (>= 2.0.0), Biobase (>= 2.5.5), multtest, survival
R (>= 2.10.0), Biobase (>= 2.5.5), multtest, survival, affy
R (>= 2.0.0), MASS, MultiLCIRT, stats, mvtnorm, mmm
R (>= 2.0.0), MASS, MultiLCIRT, stats, mvtnorm, mmm, mclust
(>= 5.0)
R (>= 2.0.0), MASS, MultiLCIRT, stats, mvtnorm, mmm, mix
R (>= 2.10), apcluster, igraph, mclust, LPGraph
LS2W(>= 1.3-1), matrixStats, geoR, RandomFields, spdep
LS2W(>= 1.3-1), matrixStats, RandomFields, spdep
R (>= 2.12.1), LICORS, RColorBrewer, fields, gam, Matrix
R (>= 2.12.1), LICORS, RColorBrewer, gam, fields
mvtnorm, fBasics, stats, utils, graphics, grDevices
quanteda (>= 2.0), quanteda.textmodels, methods, R (>= 3.5.0)
R (>= 3.0.2), actuar, LambertW, VGAM, zipfR
R (>= 3.1), enviPick, methods, purrr, CHNOSZ, stats, CAMERA
R (>= 3.1), enviPick, methods, purrr, CHNOSZ, stats,
LipidMSdata
R (>= 3.6), enviPick, methods, purrr, CHNOSZ, stats,
LipidMSdata
R (>= 4.0), shiny, utils, parallel, doParallel, foreach
R (>= 2.10), LogicReg, CircStats, gtools, plotrix
R (>= 2.13.0), multcomp, data.table, pROC, car
R (>= 3.4.0), nlme, rpart, survival, magic, survminer
R (>= 2.9), Biobase (>= 2.4), snow, qvalue, RankProd
R (>= 2.9), Biobase (>= 2.4), snow, qvalue, RankProd,
RColorBrewer, GeneMeta, gplots, genefilter, impute
R (>= 2.10), Biobase (>= 2.4), qvalue, RankProd, RColorBrewer,
GeneMeta, gplots, genefilter, impute
R (>= 2.8.0), MASS, sn, methods, miscTools
R (>= 2.14.0), methods, MALDIquant (>= 1.5), digest, XML,
base64enc, readBrukerFlexData (>= 1.5), readMzXmlData (>= 2.5)
R (>= 3.0.0), methods, MALDIquant (>= 1.8)
R (>= 3.2.5), MALDIquant, signal, robustbase, wmtsa, lattice
R (>= 3.2.5), MALDIquant, signal, robustbase, lattice
R (>= 3.2.5), MALDIquant, signal, robustbase, lattice,
waveslim
R (>= 2.9.0), affy, GeneMeta, metaArray, tspair, xtable,
metaMA, OrderedList, gtools, gplots, multtest, RankProd,
annaffy
R (>= 2.15.1), methods, genefilter, metaMA, tspair, xtable,
multtest, RankProd, gtools, grid, GeneMeta
R (>= 2.15.1), methods, genefilter, metaMA, xtable, multtest,
gtools, grid, GeneMeta
forecast (>= 5.3), parallel, RColorBrewer, smooth (>= 1.4.7)
R (>= 2.5.0), grDevices, graphics, stats, utils
R (>= 2.10.0), grDevices, graphics, stats, utils
R (>= 2.12.0), grDevices, graphics, stats, utils
R (>= 2.13.0), grDevices, graphics, stats, utils
R (>= 2.14.0), grDevices, graphics, stats, utils
R (>= 3.1.0), grDevices, graphics, stats, utils
R (>= 2.10.1), grDevices, graphics, stats, utils
R (>= 3.3.0), grDevices, graphics, stats, utils
R (>= 2.13.2), corpcor, foreach, multcomp, randomForest, MASS
R (>= 2.4.1), party, plsgenomics, st, e1071
R (>= 3.1.0), mclust, Rmixmod, MASS, mvtnorm
R (>= 3.1.0), Matrix, MASS, GIGrvg, coda, MCMCpack
R (> 3.0.1), methods, tools, ggplot2, ggrepel, gridExtra,
plotly
R(>= 2.1.0), methods, Rglpk, Kendall, glpkAPI
MASS, corpcor, tensorA, Matrix, coda, ape, rgl, pscl, orthopolynom, combinat, gtools
MASS, corpcor, tensorA, Matrix, coda, ape, pscl, orthopolynom, combinat, gtools
MASS, corpcor, tensorA, Matrix, coda, ape, pscl, orthopolynom,
combinat, gtools
MASS, boot, RColorBrewer, scatterplot3d, tcltk, tcltk2,
tkrplot, rpanel, graphics, rgl, smacof
MASS, boot, RColorBrewer, scatterplot3d, tcltk, tcltk2,
tkrplot, rpanel, graphics, rgl
R (>= 3.0.0), methods, MASS, RColorBrewer, gplots, gtools
R (>= 2.15.0), seqinr, pcaMethods, Matrix,
ROCR,Hmisc,KernSmooth, methods, seqLogo
R (>= 2.11.0), seqinr, pcaMethods, Matrix,
ROCR,Hmisc,KernSmooth, methods, seqLogo
MASS, fUtilities, compiler, R (>= 2.13.0)
mstate , prodlim, cmprsk, riskRegression
reshape, methods, lattice, grid, XML, MASS
R(>= 2.7.2), stats, graphics, robustbase, RColorBrewer, plotrix(>= 2.1.6)
R(>= 2.7.0), stats, graphics, robustbase, RColorBrewer, plotrix(>= 2.1.6)
R(>= 2.7.0), stats, graphics, robustbase, RColorBrewer
R(>= 2.10.0), stats, graphics, robustbase, RColorBrewer
R(>= 2.11.0), stats, graphics, robustbase, RColorBrewer
R(>= 2.14.0), stats, graphics, robustbase, RColorBrewer
R (>= 2.0.0), MASS, limSolve, MultiLCIRT
R (>= 2.9), graphics, stats, utils, base
R (>= 3.0), graphics, stats, utils, base
R (>= 3.5), graphics, stats, utils, base
R (>= 2.4.0), graphics, stats, utils, base
R (>= 2.5.0), graphics, stats, utils, base
R (>= 2.6), graphics, stats, utils, base
R (>= 2.10), graphics, stats, utils, base
graphics, grDevices, stats, utils, R (>= 2.10)
R (>= 2.10.0), methods, magic, partitions, emulator, Oarray
(>= 1.4-3)
R (>= 2.10.0), methods, magic, partitions, emulator, Oarray
(>= 1.4-5)
GSVA (>= 1.13.1), kknn (>= 1.2-5), parallel, lattice,
pheatmap, R (>= 2.10)
R (>= 2.9.2), ellipse, ICS, ICSNP, SpatialNP, mvtnorm, survey
igraph, MASS, glmnet, mvtnorm, parallel, R (>= 2.10.1)
R (>= 2.0.0), cclust, clv, cluster, class
R (>= 2.0.0), cclust, clue, cluster, class
R (>= 2.11.0), numDeriv, RcppEigen, Rcpp
reshape2, ggplot2, lubridate, stats, lmtest, methods, plyr
methods, parallel, compiler, matrixcalc, Formula, R (>=
2.14.1)
R (>= 2.4.0), KernSmooth, xtable, coda, methods
R (>= 2.8.0), KernSmooth, xtable, coda, bit, mvtnorm
R (>= 2.11.0), KernSmooth, xtable, coda, bit, mvtnorm
R (>= 2.12.0), KernSmooth, xtable, coda, bit, mvtnorm, lattice
R (>= 2.14.0), KernSmooth, xtable, coda, bit, mvtnorm, lattice
IRanges, RWeka, rJava, R.utils, R (>= 3.1.0)
IRanges, RWeka, rJava, R.utils, R (>= 3.2.0)
R (>= 3.5.0), glmnet, rpart, MASS, e1071, class
XML, geosphere (>= 1.2-15), sp, RSQLite, NightDay
R (>= 2.15.0), nortest, moments, MASS, robustbase, mvoutlier
Hmisc, mvpart, labdsv, vegan, fBasics, ade4
R (>= 2.7.1), randomForest, pamr, kernlab, class
R (>= 2.10.0), gam, maptools, PBSmapping
R (>= 2.2), MASS, optmatch, Matching, WhatIf, nnet, rpart, mgcv
R (>= 2.7), MASS, optmatch, Matching, WhatIf, nnet, rpart, mgcv
graphics, methods, MatchIt, mice, R (>= 2.10)
graphics, methods, MatchIt, mice, R (>= 3.5.0)
graphics, MatchIt, methods, mice, WeightIt, R (>= 3.5.0)
R (>= 2.6.0), MASS (>= 7.2-1), graphics, grDevices, stats
R (>= 2.3.1), stats, methods, utils, lattice
R (<= 2.3.1), stats, methods, utils, lattice
R (>= 2.4.0), stats, methods, utils, lattice
R (>= 2.4.1), stats, methods, utils, lattice
R (>= 2.5.0), stats, methods, utils, lattice
R (>= 2.5.1), stats, methods, utils, lattice
R (>= 2.6.0), stats, methods, utils, lattice
R (>= 2.9.0), stats, methods, utils, lattice
R (>= 2.9.1), stats, methods, utils, lattice
R (>= 2.10.0), stats, methods, utils, lattice
R (>= 2.12.0), stats, methods, utils, lattice
R (>= 2.15.0), stats, methods, utils, lattice
R (>= 2.12.0), methods, utils, graphics, stats
R (>= 2.14.0), stats, utils, methods, Matrix (>= 1.0-1)
R (>= 3.5.0), MazamaSpatialUtils (>= 0.7.3)
R (>= 3.5.0), MazamaSpatialUtils (>= 0.8.0)
akima, lattice, locfit, quantreg, SparseM
lattice, locfit, maptools, quantreg, RANN, SparseM
R (>= 2.0.0), graphics, stats, tseries, forecast
R (>= 2.10), graphics, stats, tseries, forecast
R (>= 2.50), stats, Matrix, survey, lavaan, parallel
astroFns, plotrix, graphics, R (>= 2.10)
astroFns, fBasics, lubridate, plotrix, spatial, R (>= 3.2.3)
astroFns, fBasics, lubridate, plotrix, spatial, R (>= 3.3.0)
astroFns, fBasics, lubridate, plotrix, spatial, R (>= 3.3.2)
astroFns, lubridate, plotrix, pracma, R (>= 3.4.1)
astroFns, lubridate, plotrix, pracma, R (>= 3.4.2)
astroFns, lubridate, plotrix, pracma, R (>= 3.4.0)
astroFns, lubridate, plotrix, pracma, R (>= 3.5.0)
R (>= 2.6.0), gWidgets, cairoDevice, pscl, gtools,
MetabolAnalyze
R (>= 2.10.0), proto, foreach, iterators
mclust, mvtnorm, gtools, gplots, hacks, grDevices
mclust, mvtnorm, gtools, gplots, ellipse, grDevices
mclust, mvtnorm, ellipse, gtools, gplots
tcltk, tcltk2, tkrplot, robustbase, mvoutlier, MASS, gpls, pls, splines, class, nnet, AMORE,
neural, caMassClass, clusterSim, hddplot, scatterplot3d, relimp
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls, splines, class, nnet, AMORE,
neural, caMassClass, clusterSim, hddplot, scatterplot3d, relimp
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls, splines, class, nnet, AMORE,
neural, caMassClass, clusterSim, hddplot, scatterplot3d, relimp, Icens, FTICRMS
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls, splines, class, nnet, AMORE,
neural, caMassClass, clusterSim, hddplot, scatterplot3d, relimp, Icens, FTICRMS, waved
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls, splines, class, nnet, AMORE,
neural, caMassClass, clusterSim, hddplot, scatterplot3d, relimp, Icens, FTICRMS, Rwave
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls,
splines, class, nnet, AMORE, neural, caMassClass, clusterSim,
hddplot, scatterplot3d, relimp, Icens, FTICRMS, waved
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls,
splines, class, nnet, AMORE, neural, caMassClass, clusterSim,
hddplot, scatterplot3d, relimp, Icens, waved, Matrix
tcltk, tkrplot, robustbase, PROcess, MASS, gpls, pls, splines,
class, nnet, AMORE, neural, caMassClass, clusterSim, hddplot,
scatterplot3d, relimp, Icens, FTICRMS, waved, Matrix
tcltk, tcltk2, tkrplot, robustbase, PROcess, MASS, gpls, pls,
splines, class, nnet, AMORE, neural, caMassClass, clusterSim,
hddplot, scatterplot3d, relimp, Icens, FTICRMS, waved, Matrix
tcltk, tkrplot, robustbase, MASS, gpls, pls, splines, class,
nnet, AMORE, clusterSim, hddplot, scatterplot3d, relimp, Icens,
FTICRMS, waved, Matrix, caTools
R (>= 2.13.0), survival, PearsonDS, GUniFrac, MASS
gWidgetsRGtk2, cairoDevice, GGally, Hmisc, norm
gWidgetsRGtk2, Hmisc, norm, GGally, ggplot2
Bessel, stats, MASS, mvtnorm, ghyp, numDeriv, R (>= 3.1.1)
R (>= 3.5.0), doParallel, parallel, foreach, stats
R (>= 3.5.0), doParallel, parallel, foreach, stats, copula
DescTools, MASS, nnet, survival, R (>= 3.5.0)
R (>= 2.14.0), mvtnorm, zoo, class, MASS
R (>= 2.8.1), randomForest, gbm, PresenceAbsence, rgdal
R (>= 2.8.1), randomForest, gbm, PresenceAbsence, rgdal,
fields
R (>= 2.13.0), randomForest, PresenceAbsence, rgdal, fields,
raster, survival, lattice, splines, gbm
R (>= 2.13.0), randomForest, raster, gbm, rgdal
R (>= 2.13.0), randomForest, raster, rgdal
R (>= 2.10), ClassDiscovery, ClassComparison, oompaBase
R (>= 2.10), methods, sp, ReadImages, ade4, spdep
methods, sp, ReadImages, ade4, spdep, shapes, R(>= 2.10.0)
methods, sp, ReadImages, ade4, spdep, shapes, R(>= 2.15.0)
methods, sp, jpeg, ade4, spdep, shapes, R(>= 2.15.0)
methods, sp, jpeg, ade4, spdep, shapes, ape, R(>= 2.15.0)
DBI (>= 0.2-5), digest (>= 0.6.0), methods, utils, stats
compare, doParallel, foreach, iterators, parallel
ape, phytools, phangorn, RColorBrewer, taxize
R (>= 2.14.0),
rgl,shapes,parallel,foreach,doParallel,colorRamps,RANN, MASS,
Matrix
R (>= 2.14.0), rgl, parallel, foreach, Matrix, doParallel
ggplot2, methods, scales, utils, pracma, R (>= 2.10)
gsubfn, xtable, tcltk, plyr, relimp, coda
gsubfn, xtable, tcltk, plyr, relimp, reshape
glmnet, Matrix (>= 1.2-11), parallel, tidyverse
R (>= 3.5.0), mlr3, mlr3pipelines, paradox
R (>= 2.10), grDevices, graphics, stats, utils
R (>= 3.3), grDevices, graphics, stats, utils
R (>= 3.10), grDevices, graphics, stats, utils
R (>= 2.15.2), methods, stats, pkgmaker (>= 0.15.2), rngtools,
registry, digest, grid
R (>= 2.15.2), methods, stats, pkgmaker (>= 0.16), rngtools,
registry, digest, grid
R (>= 2.15.2), methods, utils, stats, pkgmaker (>= 0.16),
rngtools, registry, digest, grid
R (>= 3.0.0), methods, utils, pkgmaker (>= 0.20), registry,
rngtools (>= 1.2.3), cluster
R (>= 3.0.0), methods, utils, pkgmaker (>= 0.17.4), registry,
rngtools (>= 1.2.3), cluster
R (>= 3.0.0), methods, utils, registry, rngtools (>= 1.2.3),
cluster
R(>= 2.11.0), circular, movMF, plotrix, shape, sn
R (>= 2.10), combinat, MASS, partitions, stats, survival
R (>= 3.5.0), gtools, pracma, colorspace, doParallel
R (>= 2.3.0), DistributionUtils, GeneralizedHyperbolic
R (>= 3.1.1), checkmate, deSolve, ODEnetwork (>= 1.3.0),
sensitivity (>= 1.12.1)
orthopolynom, conf.design, mvtnorm, nlme, gmp, crossdes
ape, nloptr, numDeriv, SparseM, corpcor, lattice, akima,
grDevices
ape, nloptr, numDeriv, SparseM, corpcor, lattice, akima,
grDevices, phytools, phangorn
ape, nloptr, numDeriv, SparseM, corpcor, lattice
ape, nloptr, numDeriv, corpcor, lattice, akima, grDevices,
phytools, phangorn
ape, nloptr, numDeriv, corpcor, lattice, grDevices, phytools,
phangorn
R (>= 3.2.0), ape, nloptr, lattice, grDevices
R (>= 3.2.0), ape, nloptr, lattice, grDevices, geiger
R (>= 3.2.0), ape, corpcor, nloptr, geiger, RColorBrewer
R (>= 2.14), stats, methods, reshape, plyr, RColorBrewer
R (>= 3.0.2), digest, MASS, methods, parallel
R (>= 3.0.2), digest, MASS, methods, Matrix, Rcpp, parallel
methods, grid, colorspace, plyr, abind, rgl, psych, XML, tcltk
methods, grid, colorspace, plyr, abind, rgl, GPArotation,
psych, XML, tcltk, xlsx, pvclust
methods, rJava, sp, maptools, raster, R (>= 2.10.0)
rJava, methods, raster, rgdal, R (>= 2.10.0)
R (>= 3.5.0), matrixStats, mnormt, mvtnorm, ranger, mle.tools
mvtnorm, clinfun, stats, graphics, R (>= 2.14.1)
R (>= 3.2.0), ggplot2 (>= 3.0), momentchi2 (>= 0.1.5),
GreedyExperimentalDesign (>= 1.3)
R (>= 3.0.0), methods, ggplot2, network, knitr
R (>= 2.15.3), methods, quantreg, survival, Formula
R (>= 3.0.0), methods, quantreg, survival, Formula
R (>= 3.0.0), methods, survival, quantreg, Formula
R (>= 3.0.0), quantreg, MatrixModels, outliers, pcaPP
R (>= 4.0), methods, grid, graphics, stats, grDevices
heatmapFlex, cluster, grDevices, graphics, stats
R (>= 3.5.0), PamBinaries (>= 1.3.0), dplyr, tuneR
methods, mvtnorm, foreach, reshape, ggplot2
R (>= 2.15.0), methods, tcltk, PBSmodelling (>= 2.60)
R (>= 2.15.0), methods, tcltk, PBSmodelling (>= 2.65)
R (>= 2.15.0), safe (>= 3.0.0), RMTstat, MASS, methods
ltm, statmod, cubature, mvtnorm, parallel
gtools, psych, GPArotation, ThreeWay, MASS
GPArotation, ThreeWay, MASS, stats, graphics, Matrix
R (>= 2.12), Matrix, pracma, bvls, RSEIS, signal, MASS, nnls
R (>= 4.0.0), Matrix, xtable, MASS, scales, deldir, grDevices,
graphics, stats
R (>= 3.2.0), adimpro (>= 0.8.2), grDevices, graphics, stats,
utils
methods, grid, xtable, RColorBrewer, gdata
R (>= 1.8.0), survival, graphics, splines
R (>= 2.10), cluster, entropy, parallel, pbmcapply, doParallel
R (>= 2.7.0), RGtk2, gWidgetsRGtk2, lattice, rggobi, ggplot2
R (>= 2.7.0), RGtk2, gWidgetsRGtk2, cairoDevice, lattice,
rggobi, ggplot2
R (>= 2.10.0), RGtk2, gWidgetsRGtk2, cairoDevice, lattice,
rggobi, ggplot2
R (>= 2.10.0), RGtk2, gWidgetsRGtk2, cairoDevice, lattice,
rggobi, ggplot2, proto
gWidgets, tcltk, tkrplot, RGtk2,
gWidgetsRGtk2,cairoDevice,numDeriv
methods, stats, rARPACK, Matrix, CompQuadForm
R (>= 2.10), gridExtra, ggplot2, partykit
R (>= 2.10), gridExtra, ggplot2, partykit, Rcpp
R (>= 3.0.2), parallel, survival, Hmisc, glmnet, MASS
R (>= 3.0.2), survival, glmnet, superpc, Hmisc, quantreg
R (>= 2.10), Matrix, gplots, methods, ggplot2
R (>= 3.5.0), homtest, goftest, wavScalogram, splus2R
R (>= 2.8.1), methods, stats4, RColorBrewer, TraMineR
R(>= 3.6.0), stats, graphics, nls2, Metrics, minpack.lm
R (>= 2.15.0), methods, dcmle, dclone, stats4
R (>= 3.1.0), dplyr, maps, MazamaSpatialUtils (>= 0.4.4)
R (>= 3.1.0), dplyr, magrittr, maps, MazamaSpatialUtils (>=
0.4.4)
R (>= 3.3.0), dplyr, maps, MazamaSpatialUtils (>= 0.5.4)
R (>= 3.3.0), dplyr, maps, MazamaCoreUtils (>= 0.1.3),
MazamaSpatialUtils (>= 0.6.1)
R (>= 3.3.0), dplyr (>= 0.8.3), maps, MazamaCoreUtils (>=
0.4.3), MazamaSpatialUtils (>= 0.6.3)
R (>= 3.5.0), dplyr (>= 0.8.3), maps, MazamaCoreUtils (>=
0.4.3), MazamaSpatialUtils (>= 0.6.3)
R (>= 2.10), mgcv, gplots, utils, graphics, nlme, methods,
stats, Biobase
R (>= 3.1.0), mgcv, RColorBrewer, Formula, lasso2
R (>= 3.5.0), data.table (>= 1.11.8), GauPro, stats, foreach,
dbscan
R (>= 3.2.0), parallel, GenomicAlignments
plyr, stats, utils, graphics, grDevices, dendextend, tseries,
R (>= 2.14.1) , rms , sspir , KFAS , Matrix, animation
R (>= 2.15.1) , rms , sspir , KFAS , Matrix, animation
R (>= 2.4.0), fExtremes, fPortfolio, quadprog, tseries, Hmisc
R (>= 2.4.0), zoo, MASS, fBasics, Hmisc, tseries, fPortfolio
R (>= 3.1.0), grDevices, jpeg, tiff, stringr, raster, utils,
graphics, stats
R (>= 3.5), stats, methods, ggplot2, inlabru (>= 2.5)
R (>= 4.1), stats, methods, ggplot2, inlabru (>= 2.5)
graphics, grDevices, stats, utils, BB, corpcor, MASS, Matrix
RgoogleMaps, adegenet, ade4, pegas, genetics, gap, lattice,
sp, calibrate, xtable, plyr, DEMEtics, gplots, dismo, mmod
RgoogleMaps, adegenet, ade4, pegas, genetics, gap, lattice,
sp, calibrate, xtable, plyr, DEMEtics, gplots, dismo, mmod,
R.utils, knitr
R (>= 1.8.0), methods, ape, ff, bigmemory
R (>= 2.14.0), zoo, xts (>= 0.8), foreach,
PerformanceAnalytics (>= 1.1.0)
R (>= 3.3.0), zoo, xts (>= 0.10-1), foreach,
PerformanceAnalytics (>= 1.5.1)
R (>= 2.13.2), methods, grid, ggplot2, rJava
R (>= 3.0), methods, graphics, stats, oompaBase (>= 3.0)
R (>= 2.9.0), Hmisc, ROCR, epitools, PBSmodelling
R (>= 2.12.0), Hmisc, ROCR, epitools, PBSmodelling
R (>= 3.0), FITSio, LaplacesDemon, magicaxis, R2Cuba,
RColorBrewer
R (>= 3.0), magicaxis (>= 2.0.3), celestial (>= 1.4.1),
FITSio, data.table
methods, utils, RGtk2, cairoDevice, qtbase, ggplot2, svMisc,
gWidgets, gWidgetsRGtk2, MASS
R (>= 3.5.0), triangle, plotly, cooptrees
R (>= 3.5.0), triangle, plotly, kappalab, GameTheory
R (>= 3.5.0), triangle, plotly, kappalab, GameTheory,
lpSolveAPI
R (>= 3.5.0), plotly, GameTheory, lpSolveAPI
R (>= 2.7), reshape, plyr, stringr, ggplot2, testthat
R (>= 3.0.0), flashClust, dynamicTreeCut
R (>= 3.0.0), fastcluster, dynamicTreeCut
R (>= 1.9.0), cluster, lpSolve, combinat
R (>= 2.1.0), tcltk, grDevices, utils, QCA
R (>= 2.1.0), tcltk, grDevices, utils, QCA (>= 0.4-6)
R (>= 2.1.0), tcltk, grDevices, utils, QCA (>= 0.4-6), MASS
R (>= 2.1.0), tcltk, grDevices, utils, abind, car, QCA (>=
0.4-6)
R (>= 2.14.0), abind, tcltk, grDevices, utils, QCA (>= 0.4-6)
R (>= 3.0.1), gsl, Matrix, mvtnorm, numDeriv, timeSeries
R (>= 2.10.0), gsl, Matrix, mvtnorm, numDeriv, timeSeries
R(>= 2.10.0), gsl, Matrix, mvtnorm, numDeriv, timeSeries
R(>= 2.6.0), methods, fSeries, mvtnorm, chron
R(>= 2.7.0), methods, fSeries, mvtnorm, chron
R(>= 2.10.0), methods, fSeries, mvtnorm, chron
R(>= 2.4.1), methods, fCalendar, fEcofin, mvtnorm, chron,its,Hmisc
R (>= 3.1.3), quantreg, SparseM, truncSP
R (>= 3.4.0), quantreg, SparseM, truncSP
R (>= 2.9.2), Hmisc, lattice, SASxport, grid
utils, lattice, grid, gWidgets, gWidgetsRGtk2
pch, survival, matrixStats, methods, utils
graph, RBGL, igraph, combinat, Rgraphviz
graph, RBGL, igraph (>= 0.5.5-1), combinat, Rgraphviz
graph, RBGL, igraph (>= 0.5.5-1), combinat, Rgraphviz, Rmpfr
graph, RBGL, igraph (>= 0.5.5-1), combinat, Rmpfr
boot, dplyr, purrr, MASS, stats, graphics
R (>= 3.1.0), fpc, foreach, optimx, compiler
tm (>= 0.6), NLP, slam, FactoMineR, explor
R (>= 3.5.0), plyr, sampling, devtools, SamplingStrata
R (>= 2.13.0), akima, BayesX, BayesXsrc, colorspace, mgcv
R (>= 2.13.0), BayesX, BayesXsrc, colorspace, mgcv
R (>= 2.13.0), BayesXsrc, colorspace, mgcv
snowfall, mixOmics, MCMCpack, mvtnorm, fields
R (>= 2.15), fields, MCMCpack, methods, mixOmics, mvtnorm,
snowfall
R (>= 3.0.0), fields, MCMCpack, methods, mixOmics, mvtnorm,
snowfall
fields (>= 9.6), MCMCpack (>= 1.4.3), methods, mixOmics,
mvtnorm (>= 1.0.7), R (>= 3.0.0), snowfall
R (>= 2.15.0), stats, stats4, methods, lattice, coda (>=
0.16-1)
R (>= 2.15.0), stats, stats4, methods, lattice, memisc, coda
(>= 0.16-1)
proto, cairoDevice, gWidgetsRGtk2, MASS, RGtk2Extras,
latticeExtra
R (>= 2.14.0), proto, cairoDevice, gWidgetsRGtk2, MASS,
RGtk2Extras, latticeExtra
R (>= 2.14.0), proto, cairoDevice, gWidgetsRGtk2, MASS,
latticeExtra, RGtk2Extras
methods, R(>= 2.7.0), coda, R2WinBUGS, rjags(>= 1.0.3)
methods, R(>= 2.7.0), coda, R2WinBUGS, rjags(>= 1.0.3-7)
methods, R(>= 2.7.0), coda, R2WinBUGS, rjags(>= 1.0.3-8)
methods, R (>= 2.14.0), coda (>= 0.13), R2WinBUGS, rjags (>=
3-3), parallel
methods, R (>= 2.14.0), coda (>= 0.13), R2WinBUGS, rjags (>=
3-3), abind, parallel
R (>= 2.8.0), rcom, rscproxy, utils, latticeExtra
R (>= 3.1.0), matrixStats, rstudioapi, plotrix
R (>= 3.2.0), graphics, stats, grDevices, utils, datasets,
methods
R (>= 3.2.0), Matrix, methods, pracma, doParallel, parallel,
foreach
R (>= 2.10), aroma.affymetrix, aroma.core
R (>= 2.10), aroma.affymetrix, aroma.core, GenomeGraphs,
biomaRt
R (>= 2.15.1), rJava, lattice, LDRTools (>= 0.1), utils,
graphics
R (>= 2.15.1), rJava, lattice, LDRTools (>= 0.2), utils,
graphics
R(>= 2.9.0), stats, utils, graphics, grDevices, RColorBrewer
R(>= 2.10.0), stats, utils, graphics, grDevices, RColorBrewer
R(>= 3.0.0), stats, utils, graphics, grDevices, RColorBrewer
R (>= 2.10), MASS, GEOmap, RPMG, RSEIS, splancs
R (>= 2.12), MASS, GEOmap, RPMG, RSEIS, splancs
R (>= 3.5.0), Matrix, MatrixModels, coda
R (>= 3.0), copula, RGENERATE, blockmatrix, Matrix, stringr
R (>= 3.5.0), copula, RGENERATE, blockmatrix, Matrix, stringr
R(>= 3.2.2), httr, lubridate, jsonlite, utils
R (>= 3.0), RCurl, jsonlite, bit64, httr
R (>= 2.0.0), grDevices, graphics, grid, lattice
R (>= 2.13.0), datasets, stats, grDevices, graphics, methods,
grid, lattice, ggplot2
R (>= 2.13.0), datasets, stats, grDevices, graphics, methods,
grid
R (>= 3.4.0), datasets, stats, grDevices, graphics, methods,
grid
methods, RGtk2(>= 2.12.8), gWidgets, gWidgetsRGtk2
R (>= 3.0.0), graphics, stats, pso, Hmisc
R (>= 3.0.0), graphics, stats, pso, Hmisc, network, GGally
R (>= 3.6.0), splines, survival, relsurv, riskRegression
R (>= 3.5.0), splines, survival, relsurv, reticulate
R (>= 2.2.0), stats, methods, graphics, utils
tools, xlsx, ggplot2, stringr, utils, stats, shiny
R (>= 2.10), chron, date, vars, MASS, strucchange, urca (>=
1.1-6), lmtest (>= 0.9-26), sandwich (>= 2.2-4)
R (>= 2.10), chron, date, vars, MASS, strucchange, urca,
methods,lmtest (>= 0.9-26), sandwich (>= 2.2-4)
RMOAjars (>= 1.0), rJava (>= 0.6-3), methods
ggplot2, tibble, lubridate, timeSeries, xts
R (>= 3.0), copula, RGENERATE,RMAWGEN,blockmatrix,Matrix
R (>= 2.13.0), plotrix, snowfall, coda, msm, nlme, matrixcalc
R (>= 2.13.0), plotrix, coda, msm, nlme, matrixcalc, snowfall
R (>= 2.10), RMixtCompUtilities (>= 4.1.0)
R (>= 2.10), RMixtCompUtilities (>= 4.1.2)
R (>= 2.10), RMixtCompUtilities (>= 4.1.4)
R (>= 2.9.0), rJava (>= 0.8), XML (>= 2.8), RNCBIEUtilsLibs,
RNCBIAxis2Libs
R (>= 2.10), abind, maps, fields, tgp, fossil, tcltk,
RColorBrewer
R (>= 2.10), splines, survival, penalized, survivalROC
R (>= 2.10), splines, date, survival, relsurv
R (>= 2.10), splines, date, survival, relsurv, timereg
R(>= 2.4.0), methods, distr(>= 2.0), distrEx(>= 2.0), distrMod(>= 2.0), RandVar(>= 0.6.2), RobAStBase
R(>= 2.7.0), methods, distr(>= 2.0), distrEx(>= 2.0),
distrMod(>= 2.0), RandVar(>= 0.6.4), RobAStBase
R(>= 3.4), methods, ROptEstOld(>= 1.2.0)
R (>= 2.14.2), ape, picante, pspline, deSolve
R (>= 3.50), methods, doParallel, foreach, parallel, iterators
R (>= 3.5.0), methods, doParallel, foreach, parallel,
iterators
R (>= 2.8.1), limma, gam, Hmisc, gplots, quantreg, stats4,
Biobase (>= 1.14.1)
R (>= 2.13.1), limma, gam, Hmisc, gplots, quantreg, stats4,
Biobase (>= 1.14.1)
R (>= 2.5.0), DBI, RSQLite, gWidgets (>= 0.0-31),
gWidgetsRGtk2 (>= 0.0-36),igraph
R (>= 2.8.0), DBI, RSQLite, gWidgets (>= 0.0-31),
gWidgetsRGtk2 (>= 0.0-36), igraph
R (>= 1.5.0), QuantLib libraries must be installed
lavaan (>= 0.5.11), plyr, ggplot2, lattice, gridExtra,
tkrplot, RColorBrewer, rgl
R (>= 2.15.0), lavaan (>= 0.5.11), plyr, ggplot2, lattice,
gridExtra, tkrplot, RColorBrewer, rgl
R (>= 2.15.0), lavaan (>= 0.5.11), plyr, ggplot2, lattice,
gridExtra, RColorBrewer
R (>= 2.15.0), lavaan (>= 0.5.11), ggplot2, lattice, gridExtra
R (>= 2.15.0), lavaan (>= 0.5.20), ggplot2, lattice, tkrplot,
tcltk
R (>= 2.15.0), lavaan (>= 0.5.11), ggplot2, lattice, tkrplot,
tcltk
R (>= 3.4.0), rJava, shiny, shinycssloaders, shinyjs
R (>= 2.10), abind, RODBC, glmnet, ggplot2, scales,
scatterplot3d, FactoMineR
R (>= 2.10), sqldf, XML, scales, FactoMineR, ggplot2
R (>= 2.10), XML, scales, ggplot2, princurve, sqldf
R (>= 2.15.0), methods, sybil, RBGL, graph
R (>= 2.15.2), digest, RCurl, httr, rjson, plyr, stringr
R (>= 2.8.0), tcltk, rgl, MBA, gpclib, sp, mgcv, tripack
R (>= 2.10.0), tcltk, rgl, MBA, gpclib, sp, mgcv, tripack,
rgdal
R (>= 2.12.0), tcltk, sp, rgdal, gpclib, rgl, MBA, tripack
R (>= 2.12.0), tcltk, sp, gpclib, rgl, MBA, tripack
R (>= 2.12.0), tcltk, sp, gpclib, rgl, MBA, tripack,
RColorBrewer
R (>= 2.12.0), tcltk, sp, gpclib, rgl, MBA, tripack,
colorspace
R (>= 2.15.0), tcltk, sp, gpclib, rgl, MBA, tripack,
colorspace
R (>= 2.15.0), tcltk, sp, rgl, MBA, tripack, colorspace, rgeos
R (>= 2.15.0), tcltk, sp, rgl, MBA, colorspace, rgeos
R (>= 2.15.0), tcltk, sp, rgl, rgeos, colorspace, MBA
R (>= 3.0.0), tcltk, sp, rgeos, rgl, MBA
R (>= 2.9.1), xts, zoo, XML, RCurl, sfsmisc
R (>= 3.1.3), testthat (>= 1.0.0), methods, XML, stringr
R (>= 3.1.3), testthat (>= 1.0.0), magick(>= 1.3), methods,
XML, stringr
R (>= 3.1.3), testthat (>= 1.0.0), magick(>= 1.3), methods,
XML, stringr, magrittr
R (>= 2.13.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, Rstem, ipred, caTools, maxent, RODBC, glmnet
R (>= 2.13.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, ipred, caTools, maxent, glmnet, Rstem
R (>= 2.13.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, ipred, caTools, maxent, glmnet, Rstem, tau
R (>= 2.14.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, ipred, caTools, maxent, glmnet, Rstem, tau
R (>= 2.14.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, ipred, caTools, maxent, glmnet, tau
R (>= 2.13.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, ipred, caTools, maxent, RODBC, glmnet, Rstem
R (>= 2.15.0), methods, SparseM, randomForest, tree, nnet, tm,
e1071, ipred, caTools, maxent, glmnet, tau
ade4, boot, doBy, gtools, statmod, survival
R (>= 3.2.2), foreach, doParallel, utils
R (>= 3.0.0), jsonlite, data.table, utils
R (>= 3.0.0), graphics, grDevices, methods, rgl, geometry,
oro.dicom
R (>= 3.0.0), graphics, grDevices, methods, rgl, geometry,
oro.dicom (>= 0.4.0)
R (>= 3.0.0), graphics, grDevices, methods, rgl, geometry,
oro.dicom (>= 0.4.1), ptinpoly
R (>= 3.0.0), graphics, grDevices, methods, rgl, geometry,
oro.dicom (>= 0.5.0), ptinpoly
R (>= 3.0.0), graphics, grDevices, methods, oro.dicom (>=
0.5.0), ptinpoly
R (>= 2.0.1), methods, distr(>= 1.6), distrEx
R (>= 2.4.0), methods, startupmsg, distr(>= 1.8), distrEx(>= 0.4-4)
R (>= 2.4.0), methods, startupmsg, distr(>= 1.9), distrEx(>= 1.9)
R (>= 2.7.0), methods, startupmsg, distr(>= 2.0), distrEx(>= 2.0)
R (>= 2.7.0), methods, startupmsg, distr(>= 2.0), distrEx(>=
2.0)
R (>= 2.12.0), methods, startupmsg, distr(>= 2.0), distrEx(>=
2.0)
R (>= 3.0.2), sp, RandomFieldsUtils (>= 0.1.0)
R (>= 3.0.2), sp, RandomFieldsUtils (>= 0.2.1)
R (>= 3.0.2), sp, RandomFieldsUtils (>= 0.3.3)
R (>= 3.3), sp, RandomFieldsUtils (>= 0.3.25)
R (>= 3.0), sp, RandomFieldsUtils (>= 0.5)
R (>= 3.5.0), sp, RandomFieldsUtils (>= 0.5.4)
R (>= 3.5.0), sp, RandomFieldsUtils (>= 0.5.5)
R (>= 3.5.0), sp, RandomFieldsUtils (>= 1.1)
R (>= 3.0), sp, RandomFieldsUtils (>= 0.5.1)
R (>= 3.5.0), sp, RandomFieldsUtils (>= 0.5.1)
R(>= 2.10.0), sp, RANN, PBSmapping, RgoogleMaps
R (>= 3.5.0), Rcpp, RcppParallel, methods, gaston, mlogit (>=
1.1-0)
R (>= 2.0.0), gdata, CHNOSZ, hash, foreach
R (>= 3.0.2), gdata, CHNOSZ, hash, foreach
R (>= 2.10.0), stats, reshape, plyr (>= 1.6), ggplot2, Hmisc
Rcpp (>= 0.9.13), R (>= 2.15.0), RcppClassic, methods
R (>= 1.7.0), tcltk, foreign, ctest, car
R (>= 1.7.0), tcltk, foreign, ctest, mva, car
R (>= 1.9.0), abind, car (>= 1.0-12), effects (>= 1.0-3), foreign, lattice, lmtest, mgcv, multcomp, mvtnorm, relimp, rgl
R (>= 1.9.0), abind, car (>= 1.0-13), effects (>= 1.0-3), foreign, lattice, lmtest, mgcv, multcomp, mvtnorm, relimp, rgl
R (>= 1.8.0), tcltk, foreign, ctest, mva, car, abind, effects (>= 1.0-2), lattice
R (>= 1.8.0), tcltk, foreign, ctest, mva, car, abind, effects (>= 1.0-3), lattice, lmtest
R (>= 1.8.0), tcltk, foreign, ctest, mva, car, abind, effects (>= 1.0-3), lattice, lmtest, multcomp, mvtnorm
R (>= 1.8.0), tcltk, foreign, ctest, mva, car, abind, effects (>= 1.0-3), lattice, lmtest, multcomp, mvtnorm, rgl, mgcv
R (>= 2.6.0), tcltk, grDevices, utils, car (>= 1.2-1),
R (>= 2.6.0), tcltk, grDevices, utils, car (>= 2.0-0),
R (>= 2.13.0), tcltk, grDevices, utils, car (>= 2.0-0)
R (>= 2.14.0), tcltk, grDevices, utils, car (>= 2.0-0)
R (>= 3.0.0), grDevices, utils, splines, RcmdrMisc (>= 1.0-1),
car (>= 2.0-21)
R (>= 3.0.0), grDevices, utils, splines, RcmdrMisc (>= 1.0-2),
car (>= 2.0-21)
R (>= 3.0.0), grDevices, utils, splines, RcmdrMisc (>= 1.0-3),
car (>= 2.0-26)
R (>= 3.2.0), grDevices, utils, splines, RcmdrMisc (>= 1.0-3),
car (>= 2.1-2)
R (>= 3.2.0), grDevices, utils, splines, RcmdrMisc (>= 1.0-4),
car (>= 2.1-3)
R (>= 3.2.0), grDevices, graphics, methods, stats, utils,
splines, RcmdrMisc (>= 1.0-6), car (>= 2.1-3), effects (>=
3.0-1)
R (>= 3.4.0), grDevices, graphics, methods, stats, utils,
splines, RcmdrMisc (>= 1.0-10), car (>= 3.0-0), effects (>=
4.0-1)
R (>= 3.4.0), grDevices, graphics, methods, stats, utils,
splines, RcmdrMisc (>= 2.5-0), car (>= 3.0-1), effects (>=
4.0-3)
R (>= 3.5.0), grDevices, graphics, methods, stats, utils,
splines, RcmdrMisc (>= 2.5-0), car (>= 3.0-1), effects (>=
4.0-3)
R (>= 3.5.0), grDevices, graphics, methods, stats, utils,
splines, RcmdrMisc (>= 2.7-1), car (>= 3.0-8), effects (>=
4.0-3)
R (>= 3.5.0), grDevices, graphics, methods, stats, utils,
splines, RcmdrMisc (>= 2.7-1), car (>= 3.1-0), effects (>=
4.0-3)
R (>= 2.3.1), Rcmdr, car, multcomp, leaps, lattice, grid, grDevices, rgl, abind, mgcv
R (>= 2.3.1), Rcmdr (>= 1.3-0), car, multcomp, leaps, lattice, grid, grDevices
R (>= 3.0.0), grDevices, utils, car, sandwich
crossdes, support.BWS (>= 0.4-1), support.CEs, survival
support.BWS2 (>= 0.4-0), support.CEs, survival
biclust, fabia, iBBiG,superbiclust(>= 1.1),BcDiag(>= 1.0.10),
rqubic, BicARE, s4vd
biclust, fabia, iBBiG,superbiclust(>= 1.1),BcDiag(>= 1.0.10),
rqubic, BicARE, s4vd, BiBitR(>= 0.2.0)
biclust, fabia, iBBiG,superbiclust(>= 1.1),BcDiag(>= 1.0.10),
rqubic, BicARE, s4vd, BiBitR(>= 0.3.1)
biclust, fabia, iBBiG,superbiclust(>= 1.1),BcDiag(>= 1.0.10),
BicARE, s4vd, BiBitR(>= 0.3.1)
tcltk, R2HTML, abind, ez, nortest, reshape
Rcmdr (>= 1.3-0), lpSolve, sampling, MASS, tcltk2, Hmisc (>=
3.8-0)
R (>= 2.13), Rcmdr (>= 1.8.0), abind, aod, aplpack, clinfun,
cmprsk, foreign, meta, metatest, multcomp, mvtnorm, optmatch,
pROC
R (>= 2.13), Rcmdr (>= 1.8.0), abind, aod, aplpack, clinfun,
cmprsk, foreign, meta, metatest, multcomp, mvtnorm, pROC
car, R (>= 2.13.0), HH (>= 2.3-27), multcomp (>= 0.991-7),
leaps, lattice, grid, grDevices, latticeExtra
R (>= 3.0.2), HH (>= 2.3-42), lattice, grid, grDevices,
latticeExtra, rgl
R (>= 3.0.2), HH (>= 3.1-13), lattice, grDevices,
latticeExtra, rgl, mgcv
Rcmdr, ggplot2, survival, RColorBrewer, methods
R (>= 2.14.0), Rcmdr, ggplot2 (>= 0.9.0), grid, grDevices,
scales, survival, RColorBrewer
R (>= 2.10.1), Rcmdr, MAc, plyr, ggplot2
R (>= 2.10.1), Rcmdr, MAd, plyr, ggplot2
R (>= 3.0.0), mixlm (>= 1.2.3), MASS, pls, xtable, phia
R (>= 3.0.0), mixlm (>= 1.1.5), MASS, pls, xtable, phia
R (>= 3.2.3), Rcmdr, RcmdrMisc, OptimClassifier (>= 0.1.4)
Rcmdr (>= 1.3-0),rgl,tkrplot, poistweedie,gWidgets, tcltk
R (>= 2.10), Rcmdr (>= 1.7.0), pROC, ROCR, ResourceSelection,
PredictABEL
R (>= 2.10), Rcmdr (>= 1.7.0), pROC, ROCR, ResourceSelection
R (>= 2.10), Rcmdr (>= 1.7.0), ROCR, pROC, ResourceSelection
R (>= 2.10), Rcmdr (>= 1.7.0), pROC, ResourceSelection
Rcmdr (>= 1.8-3), SCVA, SCRT, SCMA, tcltk, ReadImages
Rcmdr (>= 1.3-0), tcltk, car, RColorBrewer, colorspace,vcd
R (>= 2.5.0), SensoMineR, FactoMineR, Rcmdr, tcltk
Rcmdr (>= 1.3-0), tcltk, rgl, TeachingDemos
car, randtests, Rcmdr (>= 1.6), TeachingDemos, tseries
qicharts2, randtests, rmarkdown, TeachingDemos, tseries
IQCC, qcc, qicharts2, randtests, rmarkdown, TeachingDemos,
tseries
Rcmdr (>= 1.3-0), coin, survival, multcomp
R (>= 2.10), Rcmdr (>= 1.7.0), coin, survival, multcomp
Rcmdr (>= 1.3-0), rgl, TeachingDemos, tseries, abind,MASS
Rcmdr (>= 1.3-9), rgl, TeachingDemos, tseries, abind,MASS
Rcmdr (>= 1.3-9), TeachingDemos, tseries, abind,MASS,xts
Rcmdr (>= 1.3-9), TeachingDemos, tseries,
abind,MASS,xts,forecast
Rcmdr (>= 1.8-3), TeachingDemos, tseries,
abind,MASS,xts,forecast
R (>= 2.13.0), Rcmdr (>= 1.4-6),lattice,grid,grDevices
Rcmdr (>= 1.4-0), tcltk, MASS, lattice, qgraph, VIM, maps,
YaleToolkit, ade4, effects, RColorBrewer,Hmisc, car
R (>= 2.10), Rcmdr (>= 1.7.0), tcltk, survival, date, stats
R (>= 3.0), Rcmdr (>= 1.8-3), sutteForecastR
tm, slam, zoo, ca, R2HTML, lattice, latticeExtra, RColorBrewer
methods, tm (>= 0.6), NLP, slam, zoo, lattice
methods, stats, Rcpp (>= 0.10.1), pkgmaker (>= 0.10)
methods, digest, stringr, Rcpp (>= 0.9.4), pkgmaker (>= 0.6.4)
methods, stats, Rcpp (>= 0.10.1), pkgmaker (>= 0.16)
methods, stats, Rcpp (>= 0.10.1), pkgmaker (>= 0.12)
R (>= 2.8.0), e1071, rpart, ada, ipred, stats, evd
R (>= 2.10.0), e1071, rpart, ada, ipred, stats, evd, RSQLite,
methods
R (>= 2.10.0), e1071, rpart, ada, ipred, stats, evd, RSQLite,
methods, data.table (>= 1.5.4)
R (>= 2.10.0), e1071, rpart, ada, ipred, stats, evd, RSQLite,
methods, data.table (>= 1.6.1)
R (>= 2.10.0), e1071, rpart, ada, ipred, stats, evd, RSQLite,
methods, data.table (>= 1.6.1), ff, ffbase
R (>= 4.0), Matrix, speedglm, PoissonBinomial
R (>= 4.0), Matrix, speedglm, PoissonBinomial,
ShiftConvolvePoibin, utils, matrixStats
gWidgets, gWidgetstcltk(>= 0.0-44), Renext(>= 1.5-0)
graphics, stats, utils, gWidgets, gWidgetstcltk(>= 0.0-44),
Renext(>= 2.1-0)
R (>= 2.13.0),gtools,gplots,graphics,Rcpp (>= 0.12.1)
methods, splines, mvtnorm, mgcv, Rniftilib
R (>= 2.13.0), R.utils, R.oo, R.methodsS3, zoo, raster, sp,
rgdal
R (>= 2.11.0), R.utils, R.oo, R.methodsS3, zoo, raster,
sp,ncdf
R (>= 2.11.0), R.utils, R.oo, R.methodsS3, zoo, raster (>=
1.8.39), sp,ncdf
R (>= 2.11.0),R.utils, R.oo, R.methodsS3, zoo, raster (>=
1.9.5), sp,ncdf
R (>= 2.11.0),R.utils, R.oo, R.methodsS3, zoo, raster (>=
1.9.5), sp,ncdf,corpcor
R (>= 2.14.0),R.utils,R.oo,R.methodsS3, zoo, raster,
sp,ncdf,corpcor,bigmemory,biganalytics
R (>= 1.4.0), graphics, stats, utils, png
R (>= 2.10), graphics, stats, utils, png
R (>= 2.10), graphics, stats, utils, png, RJSONIO
R (>= 2.6.0), methods, utils, graph, grid
R (>= 3.5.0), xts, zoo, TTR, tidyr, tibble
R (>= 2.14.0), methods, rgl, rSymPy, bio3d
R (>= 3.4.0), Rcpp (>= 0.12.0), methods, rstantools, forecast
R (>= 2.2.1), fEcofin, fCalendar, fBasics, fSeries, fMultivar, fExtremes, fCopulae, fOptions, fPortfolio
R (>= 2.2.0), fEcofin, fUtilities, fCalendar, fSeries, fImport, fBasics, fArma, fGarch, fNonlinear, fUnitRoots, fTrading, fMultivar, fRegression, fExtremes, fCopulae, fOptions, fExoticOptions, fAsianOptions, fAssets, fPortfolio
R (>= 2.4.0), fEcofin, fUtilities, fCalendar, fSeries, fImport, fBasics, fArma, fGarch, fNonlinear, fUnitRoots, fTrading, fMultivar, fRegression, fExtremes, fCopulae, fOptions, fExoticOptions, fAsianOptions, fAssets, fPortfolio
R(>= 2.12.0), Rcpp(>= 0.8.0), methods, stats, graphics
R (>= 2.10.0), methods, graphics, tcltk, graph
R (>= 2.14.0), methods, distrMod(>= 2.7.0), ROptEst(>= 1.1.0),
robustbase, evd
R(>= 3.4), methods, distrMod(>= 2.8.1), ROptEst(>= 1.2.0),
robustbase, evd
R(>= 2.7.0), stats, lattice, RColorBrewer, Biobase, distr,
distrMod, RobAStBase
R(>= 2.8.1), methods, Biobase, affy, beadarray, distr, RobLox,
lattice, RColorBrewer
R(>= 2.14.0), methods, Biobase, affy, beadarray, distr,
RobLox, lattice, RColorBrewer
robustbase, quantreg, splines, BB, rgenoud
R (>= 2.9.2), robustbase, stats, graphics, survival
R (>= 3.2.0), stats, graphics, survival, robustbase
R (>= 3.5.0), stats, gtools, pracma, colorspace
R (>= 3.5.0), stats, gtools, zoo, pracma, colorspace
R (>= 3.5.0), stats, gtools, zoo, pracma, colorspace, scales
R (>= 2.13.0), utils, tools, methods, brew
iterators, foreach, parallel, doParallel, inflection
R (>= 2.10.1), ggplot2, minpack.lm, pracma, ptw
R (>= 2.12), RPMG, RSEIS,GEOmap, RFOC, minpack.lm, cluster
R (>= 2.12), RPMG, RSEIS,GEOmap, RFOC, minpack.lm, cluster,
rgl, cda
R (>= 2.12), RPMG, RSEIS,GEOmap, MBA, RFOC, minpack.lm,
cluster, rgl
R (>= 2.10.0), stats, truncnorm, parallel
MASS, MCMCpack, mvtnorm, lattice, coda, stats
R (>= 2.12), foreign, memisc, methods, ggplot2, cairoDevice
R (>= 2.12), methods, foreign, memisc, ggplot2, cairoDevice
R (>= 2.14), methods, foreign, memisc, ggplot2 (>= 0.9)
R (>= 2.14), methods, foreign, memisc, psych, ggplot2 (>= 0.9)
R (>= 2.14), methods, grid, foreign, memisc, psych, ggplot2
(>= 0.9.2)
R (>= 2.2.0), stats, multtest, sma, methods
mclust,parallel,ggplot2, Matrix, R (>= 3.5)
R (>= 2.10), stats, graphics, boot, KernSmooth
R (>= 3.0), igraph, doParallel, foreach, iterators, parallel
R (>= 3.0), igraph (>= 1.0.0), doParallel, foreach, iterators,
parallel
R (>= 2.10), raster, trip, data.table, geosphere
R (>= 2.5.1), mclust, stats, utils, RColorBrewer, abind,
xtable, digest, e1071, snow
R (>= 2.5.1), mclust, stats, utils, RColorBrewer, abind,
xtable, digest, e1071, snow, SparseM
R (>= 2.12.1), mclust, stats, utils, RColorBrewer, abind,
xtable, digest, e1071, snow, SparseM
R (>= 2.7.0), splines, quantreg, grid, gtools
R (>= 2.7.0), splines, quantreg, grid, gtools, data.table,
reshape
R (>= 2.7.0), data.table, grid, gtools, quantreg, plyr,
splines
R (>= 2.10), data.table, grid, gtools, plyr, quantreg, sn,
splines
R (>= 2.10), data.table (>= 1.5.3), foreach, grid, gtools,
plyr, quantreg, sn, splines
R (>= 2.10), colorspace, data.table (>= 1.5.3), foreach, grid,
gridBase, gtools, plyr, quantreg, sn, splines
R (>= 2.10), boot, colorspace, data.table (>= 1.5.3), foreach,
grid, gridBase, gtools, plyr, quantreg, sn, splines
R (>= 2.10), data.table (>= 1.5.3), foreach, grid, methods,
plyr, quantreg, splines
R (>= 2.10), data.table (>= 1.6.2), foreach, grid, methods,
plyr, quantreg, splines
R (>= 2.10), data.table (>= 1.6.4), foreach, grid, methods,
plyr, quantreg, splines
R (>= 2.12), boot, colorspace, data.table (>= 1.6.4), foreach,
grid, gridBase, methods, plyr, randomNames (>= 0.0-3),
quantreg, splines
R (>= 2.12), boot, colorspace, data.table (>= 1.7.5), foreach,
grid, gridBase, methods, plyr, randomNames (>= 0.0-4),
quantreg, splines, SGPdata
R (>= 2.12), boot, colorspace, data.table (>= 1.7.9), foreach,
grid, gridBase, methods, plyr, reshape2, randomNames (>=
0.0-5), quantreg, splines, SGPdata
R (>= 2.12), boot, colorspace, data.table (>= 1.8.0), foreach,
grid, gridBase, methods, plyr, reshape2, randomNames (>=
0.0-5), quantreg, splines, SGPdata (>= 2.0-0)
graphics, grDevices, stats, utils, shiny
flsa, igraph, dse, Matrix, R (>= 2.10.1)
R (>= 2.13.0), Matrix, SPAtest, RSpectra
R(>= 2.4.0), stats, graphics, marray, limma, geneplotter, plotrix(>= 2.1.6)
R(>= 2.4.0), stats, graphics, plotrix(>= 2.1.6)
methods, SNPMaP.cdm, affxparser, R.huge, R.utils, R (>= 2.4.0)
methods, SNPMaP.cdm, affxparser, R.huge, R.utils, R (>=
2.10.0)
R (>= 2.4.0), haplo.stats, survival, mvtnorm
R (>= 2.4.0), haplo.stats, survival, mvtnorm, gdata
R (>= 2.13.0), haplo.stats, survival, mvtnorm, gdata
R (>= 2.13.0), haplo.stats, survival, mvtnorm
R (>= 3.0.0), haplo.stats, survival, mvtnorm, parallel
R (>= 3.0.0), haplo.stats, survival, mvtnorm
R (>= 2.10), IRanges, GenomicRanges, Biostrings, Rsamtools
stats, glmnet, ncvreg, MASS, parallel, brglm
R (>= 4.0), circular, ADGofTest, grDevices, graphics
R (>= 2.9.2), tcltk, TeachingDemos, coda, lattice
R (>= 3.1.1), beanplot, raster, plotrix, TeachingDemos
R (>= 1.8.0), lattice, graphics, fields, rpart, maptree,
colorspace, gtools, car
R (>= 1.8.0), lattice, graphics, fields, rpart, maptree,
colorspace, gtools
R (>= 3.2.5), rpart , parallel , epandist , triangle, caret
R (>= 3.2.5), rpart , parallel, caret, nnet, pls
R (>= 2.12.0),R.utils,R.filesets,nlme,
aroma.core,aroma.affymetrix, splines, MASS, methods, mclust,
mnormt, ellipse
R (>= 2.10.0), stats, graphics, utils, tcltk
R (>= 2.10.0), stats, graphics, utils, tcltk,psych
R (>= 2.10.0), stats, graphics, utils, tcltk, psych
R (>= 2.10), methods, maptools, RSQLite, igraph (>= 0.6),
MASS, sp, BH
R (>= 2.10), survival, mgcv, R2HTML, gss, codetools
R (>= 2.15.0), maptools, reshape2, sp, spacetime, zoo
R (>= 3.4.0), AlgDesign, scales, scatterplot3d, emoa,
grDevices
R (>= 2.10), AlgDesign, scales, scatterplot3d, emoa, grDevices
R (>= 2.10.0), rJava, XML, grDevices, utils
R (>= 2.15.0), memoise, doParallel, pbapply
R (>= 2.15.0), memoise, doParallel, pbapply, formattable
R (>= 3.5.0), memoise, doParallel, pbapply, formattable
R (>= 3.5.0), memoise, doParallel, pbapply, SamplingBigData,
glue
R (>= 3.5.0), memoise, doParallel, pbapply, SamplingBigData,
glue, methods
R (>= 2.6.0), stats, grDevices, graphics, MASS
R (>= 3.0), stats, utils, graphics, grDevices
R (>= 3.0), stats, utils, graphics, grDevices, data.table
R (>= 3.0), stats, utils, graphics, grDevices, ggplot2,
foreign
R (>= 3.0), stats, utils, graphics, grDevices, ggplot2,
methods
R (>= 3.2.0), stats, utils, graphics, grDevices, ggplot2,
methods
R (>= 3.2.0), ggplot2 (>= 2.0.0), stats, utils, graphics,
grDevices, methods
R (>= 3.2.0), ggplot2 (>= 2.1.0), stats, utils, graphics,
grDevices, methods
R (>= 3.2.0), stats, utils, graphics, grDevices, methods,
ggplot2 (>= 2.1.0)
ScottKnott, reshape2, effsize, stats, car
R (>= 3.1.0), glasso, Rmixmod, parallel, base
R (>= 3.5.0), SemNetDictionaries (>= 0.1.2)
R (>= 3.5.0), SemNetDictionaries (>= 0.1.3)
R (>= 3.5.0), SemNetDictionaries (>= 0.1.5)
R (>= 3.6.0), SemNetDictionaries (>= 0.1.5)
R (>= 3.6.0), SemNetDictionaries (>= 0.1.8)
R (>= 2.14.0), MASS, VGAM, magic, statmod, mgcv, trust,
mvtnorm
R (>= 2.14.0), MASS, VGAM, magic, statmod, mgcv, trust,
mvtnorm, polycor
R (>= 2.15.1), CDVine, VGAM, mgcv, mvtnorm
R (>= 2.14.0), magic, mgcv, trust, mvtnorm
R (>= 2.14.0), magic, mgcv, trust, mvtnorm, copula
R (>= 3.1.1), copula, mgcv, mvtnorm, gamlss.dist
R (>= 3.0.0), stats, grDevices, graphics
QCA, QCAGUI, lattice, betareg, R (>= 3.3.0)
QCA, lattice, betareg, fmsb, methods, R (>= 3.3.0)
QCA, methods, betareg, fmsb, ggplot2, ggrepel, R (>= 3.3.0)
QCA, admisc, methods, ggplot2, ggrepel, stargazer, R (>=
3.5.0)
R (>= 3.5.0), rgdal, sp, rgeos, landscapemetrics, raster
R (>= 2.14.0), methods, PsiHat, multtest, limma
ape, phylobase, phyext, RColorBrewer, phyloseq
R (>= 2.11.0), tcltk, tcltk2 , stats4 , xlsx
R (>= 2.11.0), tcltk, tcltk2, stats4, rgl ,xlsx
R (>= 2.5.1), hdrcde, locfit, MCMCpack, tcltk
stats, graphics, grDevices, utils, R (>= 2.13)
stats, graphics, grDevices, utils, rcdk, R (>= 2.13)
R(>= 2.11), lattice, grid, ggplot2, nortest
R (>= 2.11), lattice, grid, ggplot2, nortest, reshape
R (>= 2.15.1), lattice, grid, ggplot2, nortest, reshape, plyr
R (>= 2.15.1), lattice, grid, ggplot2, nortest, reshape2,
plyr, testthat
R (>= 2.14.0), lattice, grid, ggplot2, nortest, reshape2,
plyr, testthat
R (>= 2.3.0), DistributionUtils, GeneralizedHyperbolic, RUnit
R (>= 3.0.1), MASS, gregmisc, matrixcalc, gtools
R (>= 2.15.3), MASS, gregmisc, matrixcalc, gtools
R (>= 2.14.0), httr, htmlTable, sp, methods
R (>= 2.0.1), e1071, randomForest, methods, bioDist, zipfR
R (>= 2.10), rjson, ggplot2, httr, htmltools
R (>= 3.0.2), glmnet, SiZer, datasets, lqa, qgraph, SIS
R (>= 3.0.0), glasso, longitudinal, flare, mvtnorm, network
MASS, sp, maps, maptools, shapefiles, spdep, gtools, gpclib,
foreign, lattice, boot, Matrix, nlme
MASS, sp, maps, maptools, shapefiles, spdep, gtools, rgeos,
foreign, lattice, boot, Matrix, nlme
spdep, quantreg, GWmodel, plm, spatialreg
R (>= 2.10.0), fields, spatstat, smatr, boot, waveslim
R (>= 2.10.0), fields, spatstat, smatr, boot, waveslim,
LambertW
R (>= 2.10.0), fields, spatstat, smatr, boot, waveslim,
LambertW, turboEM
R (>= 2.10.0), fields, spatstat, smatr, boot, waveslim,
LambertW, turboEM, CircStats, fastcluster, maps
R (>= 2.10.0), spatstat, fields (>= 6.8), smoothie, smatr,
turboEM
R (>= 2.10.0), spatstat (>= 1.37-0), fields (>= 6.8),
smoothie, smatr, turboEM
R (>= 2.10.0), spatstat (>= 2.0-0), fields (>= 6.8), smoothie,
smatr, turboEM
R (>= 4.1.0), spatstat (>= 2.0-0), fields (>= 6.8), smoothie,
smatr, turboEM
R (>= 3.5.0), fda, splines, graphics, rgl, geometry
R (>= 3.0), cubature, SimplicialCubature, mvmesh
R (>= 3.0), cubature, SimplicialCubature, mvmesh, abind
R (>= 3.0), cubature, SimplicialCubature (>= 1.3), mvmesh,
abind
R (>= 2.14.0), parallel, doParallel, foreach, adegenet, pegas
R (>= 3.0.1), plyr, base, stats, methods
akima, car, cluster, e1071, geoR, graphics, leaps, MASS, mclust, pixmap, robustbase, rgl, mgcv
akima, car, cluster, e1071, class, geoR, sp, leaps, MASS, mclust, pixmap, robustbase, rgl, mgcv, methods
akima, car, cluster, e1071, class, geoR, sp, leaps, MASS,
mclust, pixmap, robustbase, rgl, mgcv, methods
akima, car, cluster, e1071, class, geoR, sp, leaps, MASS,
pixmap, robustbase, rgl, mgcv, methods
R (>= 2.10), akima, car, cluster, e1071, class, geoR, sp,
leaps, MASS, pixmap, robustbase, rgl, rgr, sgeostat, mgcv,
methods, xtable
R (>= 2.10), car, cluster, e1071, class, geoR, sp, leaps,
MASS, pixmap, robustbase, rgl, rgr, sgeostat, mgcv, methods,
xtable
R (>= 2.10), car, cluster, e1071, class, geoR, sp, leaps,
MASS, MBA, pixmap, robustbase, rgl, sgeostat, mgcv, methods,
xtable
rgl, car, MASS, akima, labdsv, RColorBrewer, vegan, tcltk2,
tcltk, maptools, sciplot, som
rgl, car, MASS, ffmanova, akima, labdsv, RColorBrewer,
vegan,tcltk2, tcltk, maptools, sciplot, som
R (>= 2.7.0), proxy, clue, survey, RANN, lpSolve
R (>= 2.7.0), proxy, survey, lpSolve, ggplot2
R (>= 2.14.0), Biobase, multtest, distr, fBasics, methods
R (>= 3.0.0), MASS, memisc, Formula, mnormt
R (>= 3.2.0), MASS, memisc, Formula, mnormt, pbivnorm
R (>= 3.5.0), MASS, memisc, Formula, mnormt, pbivnorm
R (>= 3.2.0), xts, zoo, methods, graphics, grDevices, stats,
utils
R (>= 3.1.0), nlme, ape, cluster, dirmult, matrixStats
R (>= 2.1.0),AIM, survival, ggplot2, Matrix
R (>= 2.10), igraph, RBGL, utils, BiasedUrn, graph, graphics,
stats
R (>= 2.15.1), MASS, mvtnorm, tensor, sfsmisc, Rcpp (>=
0.10.3), RcppArmadillo (>= 0.3.800.1)
parallel, signal, fdrtool, graphics, stats, utils
VGAM, nnet, parallel, stats, stringr, plotrix, methods
R (>= 2.14.0), stats, mcmc, coda, survival, normalp, R.utils
R (>= 2.15.3), mcmc, coda, survival, normalp, R.utils, BMS
R (>= 2.15), edgeR, baySeq, DESeq, ROC, methods
R (>= 1.8.0), SPOT, randomForest, e1071, snowfall, matlab
R (>= 1.8.0), SPOT, randomForest, e1071, snowfall
R (>= 1.8.0), SPOT, randomForest, e1071, snowfall, cmaes,
powell, rSFA
R (>= 2.14.0), SPOT, randomForest, e1071, snowfall, cmaes,
powell, rSFA, twiddler
R (>= 2.14.0), SPOT, cmaes, e1071, powell, randomForest, rSFA,
ROCR, snowfall, twiddler
R (>= 2.14.0), SPOT, cmaes, e1071, powell, randomForest, rSFA,
ROCR, adabag, parallel, twiddler
R (>= 2.14.0), SPOT, cmaes, e1071, powell, randomForest, rSFA,
rCMA, ROCR, adabag, parallel, twiddler
R (>= 2.7.0), methods, tcltk, vcd, fields (>= 4.1), gplots,
splines, gclus, nnls (>= 1.1), odesolve, minpack.lm (>= 1.1-1)
R (>= 2.10.0), methods, tcltk, vcd, fields (>= 4.1), gplots,
splines, gclus, nnls (>= 1.1), deSolve, minpack.lm (>= 1.1-1)
R (>= 2.5.0), methods, tcltk, vcd, fields, gplots, splines
R (>= 2.6.0), methods, tcltk, vcd, fields, gplots, splines, gclus
R (>= 2.6.0), methods, tcltk, vcd, fields, gplots, splines, gclus, nnls, quadprog, minpack.lm
R (>= 2.7.0), methods, tcltk, vcd, fields, gplots, splines, gclus, nnls (>= 1.1), quadprog, minpack.lm
R (>= 2.7.0), methods, tcltk, vcd, fields (>= 4.1), gplots, splines, gclus, nnls (>= 1.1), minpack.lm (>= 1.1-1)
R (>= 2.7.0), methods, tcltk, vcd, fields (>= 4.1), gplots, splines, gclus, nnls (>= 1.1), odesolve, minpack.lm (>= 1.1-1)
prettyGraphs (>= 2.0.0), TExPosition (>= 2.0.0), ExPosition
(>= 2.0.0), InPosition
prettyGraphs (>= 2.1.4), TExPosition (>= 2.6.10), ExPosition
(>= 2.8.19), InPosition (>= 0.12.7)
R (>= 3.6), ReDaMoR (>= 0.4.3), magrittr, dplyr, DBI,
RClickhouse (>= 0.5.2)
R (>= 3.6), ReDaMoR (>= 0.5.2), magrittr, dplyr, DBI,
RClickhouse (>= 0.6.0)
R (>= 3.6), ReDaMoR (>= 0.6.0), magrittr, DBI, dplyr
R (>= 3.6), ReDaMoR (>= 0.7.0), magrittr, DBI, dplyr
R (>= 2.14.0), raster, bit, rgdal, methods
R (>= 2.10), MESS, Matrix, foreach, utils
R (>= 3.1.0), graphics, grDevices, KernSmooth
R (>= 2.10), XML, RCurl, plyr, methods, taxize
R (>= 3.5.0), ManifoldOptim, rTensor, MASS
R (>= 2.5.1),leaps, locfit, mgcv, tseries
R (>= 2.5.0), methods, tframe, TSdbi, RMySQL
R (>= 2.8.0), methods, tframePlus, TSdbi, RMySQL
R (>= 2.5.0), methods, tframePlus, TSdbi, RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi, RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.10-1), RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.3-1), RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.5-1), RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.11-1), RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.6-1), RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.8-1), RMySQL
R (>= 2.8.0), methods, tframe, tframePlus, DBI, TSdbi (>=
2011.11-1), RMySQL
R (>= 2.8.0), methods, tframePlus, TSdbi, RPostgreSQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.10-1), RPostgreSQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.3-1), RPostgreSQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.11-1), RPostgreSQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.6-1), RPostgreSQL
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.8-1), RPostgreSQL
R (>= 2.8.0), methods, tframe, tframePlus, DBI, TSdbi (>=
2011.11-1), RPostgreSQL
R (>= 2.5.0), methods, tframe, TSdbi, RSQLite
R (>= 2.8.0), methods, tframePlus, TSdbi, RSQLite
R (>= 2.5.0), methods, tframePlus, TSdbi, RSQLite
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.10-1), RSQLite
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.3-1), RSQLite
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.5-1), RSQLite
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.8-1), RSQLite
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.6-1), RSQLite
R (>= 2.8.0), methods, tframe, tframePlus, DBI, TSdbi (>=
2011.8-1), RSQLite
methods, grDevices, graphics, stats, snowfall, MASS
methods, grDevices, graphics, stats, MASS
methods, grDevices, graphics, stats, tools, MASS
R (>= 2.14.0), nlme,locpol, KernSmooth, dtw, longitudinalData,
wmtsa
R (>= 2.14.0), locpol, KernSmooth, dtw, longitudinalData,
wmtsa
R (>= 2.10.0), methods, DBI, TSdbi (>= 2011.11-1), tframe,
tfplot, tframePlus, zoo
R (>= 2.8.0), tframe, tfplot, tframePlus(>= 2012.8-1), TSdbi
R (>= 2.8.0), methods, tframePlus, TSdbi, DBI, fame, tis, zoo
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi, DBI, fame,
tis, zoo
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.5-1), DBI, fame, tis, zoo
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.5-1), DBI, fame (>= 2.12), tis, zoo
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.6-1), DBI, fame (>= 2.12), tis, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2010.5-1), quantmod,
tframe, tframePlus
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.11-1), quantmod,
tframe, tframePlus
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.6-1), quantmod,
tframe, tframePlus
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.11-1), tframe (>=
2011.11-1), tframePlus, zoo, quantmod
R (>= 2.8.0), methods, DBI, TSdbi, tseries, tframe, tframePlus, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2009.1-1), tseries, tframe, tframePlus, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2009.1-1), tseries,
tframe, tframePlus, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2010.5-1), tseries,
tframe, tframePlus, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.11-1), tseries,
tframe, tframePlus, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.6-1), tseries,
tframe, tframePlus, zoo
R (>= 2.8.0), methods, tframePlus, TSdbi, DBI, RODBC
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.10-1), DBI, RODBC
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.3-1), DBI, RODBC
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2010.5-1), DBI, RODBC
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.11-1), DBI, RODBC
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.6-1), DBI, RODBC
R (>= 2.8.0), methods, tframe, tframePlus, TSdbi (>=
2011.8-1), DBI, RODBC
R (>= 2.8.0), methods, DBI, TSdbi (>= 2010.12-1), tframe,
tframePlus, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.11-1), tframe,
tframePlus, gdata, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2010.12-1), tframe,
tframePlus, gdata, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.6-1), tframe,
tframePlus, gdata, zoo
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.11-1), tframe,
tframePlus, gdata
R (>= 2.8.0), methods, DBI, TSdbi (>= 2010.12-1), tframe,
tframePlus, gdata
R (>= 2.8.0), methods, DBI, TSdbi (>= 2011.6-1), tframe,
tframePlus, gdata
R (>= 2.14.0), Hmisc, pastecs, reshape, Kendall, wq, stats,
e1071 , nlme, timeSeries, fBasics, relimp, tcltk
R (>= 2.14.0), Hmisc, pastecs, reshape, wq, stats, e1071 ,
nlme, timeSeries, fBasics, relimp, tcltk, utils , base
R (>= 2.14.0), Hmisc, pastecs, reshape, wq, stats, e1071 ,
nlme, timeSeries, fBasics, relimp, tcltk, utils , base , zoo
R (>= 2.15.0), Hmisc, pastecs, reshape, wq, stats, e1071 ,
nlme, timeSeries, fBasics, relimp, tcltk, utils , base , zoo
LearnBayes, ggplot2, gridExtra, dplyr, shiny
R (>= 3.5), fda, ggplot2, rgl, knitr, rmarkdown
R(>= 2.8.1), base, stats, graphics, grDevices
R (>= 2.6.0), utils, tcltk, Hmisc, R2HTML
R (>= 1.8.0), MASS, HardyWeinberg, calibrate
R (>= 1.8.0), MASS, calibrate, robCompositions
R (>= 1.8.0), MASS, calibrate, HardyWeinberg
R (>= 2.8.1), TraMineR (>= 1.8-4), RColorBrewer, combinat,
survival
R (>= 2.8.1), TraMineR (>= 1.8-9), RColorBrewer, combinat,
survival, cluster
R (>= 2.8.1), TraMineR (>= 1.8-9), RColorBrewer, survival,
cluster
R (>= 3.0.0), TraMineR (>= 2.0-5), RColorBrewer, survival,
cluster
DBI, RSQLite, stats, googleVis, RJSONIO, ggplot2, digest
permute, mclust, graphics, grDevices, stats, utils
R (>= 3.0.0), runjags, stats, graphics, utils, grDevices,
coda, parallel, rjags
graphics, grDevices, stats, utils, lubridate
graphics, grDevices, stats, utils, lubridate, ggplot2
ape, Matrix, subplex, TreeSim (>= 1.6), odesolve
ape, Matrix, subplex, TreeSim (>= 1.6), deSolve
ape, Matrix, subplex, TreeSim (>= 2.0), deSolve
ape, Matrix, subplex, TreeSim (>= 2.1), deSolve
rpart, tcltk, igraph, colorspace, tkrplot, kernlab, coin
rpart, tcltk, igraph, colorspace, tkrplot, kernlab, coin,
randomForest
ggplot2, scales, reshape2, ez, R (>= 3.0)
ggplot2, psych, reshape2, stats, ez, PSAgraphics, compiler,
scales, R (>= 3.0)
R(>= 3.0), methods, grDevices, graphics, stats, MBA, gstat,
automap, sp, randomForest
R (>= 2.10), maptools, sp, foreign, methods, grDevices, base,
stats, utils, UScensus2000tract, UScensus2000cdp, gpclib
R (>= 2.10), maptools, sp, foreign, methods, grDevices, base,
stats, utils, UScensus2000tract, UScensus2000blkgrp,
UScensus2000cdp, gpclib
R (>= 2.10), maptools, sp, foreign, methods, grDevices, base,
stats, utils, UScensus2000tract, UScensus2000cdp, gpclib, XML,
UScensus2000
R (>= 2.10), maptools, sp, foreign, methods, grDevices, base,
stats, utils, UScensus2000blkgrp, UScensus2000tract,
UScensus2000cdp, gpclib, XML, UScensus2000
R (>= 2.10), maptools, sp, foreign, methods, grDevices, base,
stats, utils
coda, gtools, graphics, grDevices, stats
R (>= 3.0.0), sp, RandomFields, automap, fields, gstat
httr , ggplot2 , magick , utils , grDevices , graphics , plyr
, scales
R (>= 2.15.0), MASS, HistData, Hmisc, aplpack, quantreg
R (>= 2.15.0), MASS, HistData, Hmisc, quantreg
R (>= 1.8.0), BayesX, splines, Runuran, formula.tools
R (>= 3.1.1), adehabitat, kulife, MASS, car, stats, utils,
grDevices, graphics, ade4
R (>= 3.1.1), adehabitatHS, kulife, MASS, car, stats, utils,
grDevices, graphics, ade4
R (>= 2.10.0), e1071, lattice, grid, nnet, pixmap, mnormt,
MASS
R (>= 2.9.0), e1071, lattice, grid, nnet, pixmap, mnormt, MASS
R (>= 1.9.0), Zelig, R2HTML, accuracy , utils
R (>= 2.1.0), Zelig, R2HTML, accuracy , utils
R (>= 2.10), survival, stats, graphics, ggplot2
R (>= 3.5.0), survival, stats, graphics, ggplot2, Rcpp,
methods
R (>= 2.4.0), splines, methods, stats, stats4
R (>= 2.5.0), splines, methods, stats, stats4
R (>= 2.8.0), splines, methods, stats, stats4
R (>= 2.10.0), splines, methods, stats, stats4
R (>= 2.11.1), splines, methods, stats, stats4
R (>= 2.12.0), splines, methods, stats, stats4
R (>= 2.14.0), splines, methods, stats, stats4
R (>= 2.15.1), splines, methods, stats, stats4
R (>= 2.15.1), methods, splines, stats, stats4
R (>= 3.0.0), methods, splines, stats, stats4
R (>= 3.0.0), methods, stats, splines, stats4
R (>= 3.0.0), methods, stats, stats4, splines
R (>= 3.1.0), methods, stats, stats4, splines
R (>= 3.4.0), methods, stats, stats4, splines
R (>= 3.5.0), methods, stats, stats4, splines
R (>= 3.3.2), methods, stats, stats4, VGAM
R (>= 2.10),e1071,car, colorspace, nnet, robustbase, tcltk,
tkrplot, sp, vcd, Rcpp
R (>= 3.3.0), tcltk, tkrplot,VIM (>=
4.0.0),survey,gWidgetsRGtk2
R (>= 2.13), tcltk, tkrplot,VIM (>=
4.0.0),survey,gWidgetsRGtk2
R (>= 3.5.0), dtw, tseries, RTransferEntropy
R (>= 1.9.0), graphics, stats, lattice, nlme, survival
R (>= 2.4.0), grDevices, graphics, stats, utils
R (>= 2.5.0), R (<= 2.9.2), grDevices, graphics, stats, utils
R (>= 2.0.0), graphics, stats, lattice, nlme, survival
R (>= 3.1.0), foreach(>= 1.2.0), parallel, doParallel
R (>= 3.0.0), stringr, XML, XML2R, RCurl
R (>= 3.0.0), XML, XML2R, RCurl, stringr
R (>= 2.15.2), RJSONIO, RCurl, zoo, stats, pracma, Rcpp (>=
0.10.3)
R (>= 2.15.2), zoo, RCurl, RJSONIO, stats, pracma, Rcpp (>=
0.10.3)
R (>= 2.12.0), bayesm, MASS, clusterGeneration, TeachingDemos,
scatterplot3d, KernSmooth
R (>= 2.14.1), waveslim, wavemulcor, colorspace
R (>= 2.10), mclust, mnormt, tmvtnorm, mvtnorm
R (>= 2.3.0), stats, impute, grDevices, dynamicTreeCut (>=
1.20), utils, flashClust, qvalue, Hmisc, splines
R (>= 2.3.0), stats, impute, grDevices, dynamicTreeCut (>=
1.20), utils, flashClust, Hmisc, splines, cluster
R (>= 2.10.0), stats, impute, grDevices, dynamicTreeCut (>=
1.20), utils, flashClust, Hmisc, splines, cluster, reshape
R (>= 2.10), stats, impute, grDevices, dynamicTreeCut (>=
1.20), utils, flashClust, Hmisc, splines, cluster, reshape
R (>= 2.10), stats, impute, grDevices, dynamicTreeCut (>=
1.20), utils, flashClust, Hmisc, splines, cluster, reshape,
MASS
R (>= 2.14), stats, impute, grDevices, dynamicTreeCut (>=
1.20), utils, flashClust, Hmisc, splines, cluster, reshape,
MASS, foreach, doParallel
R (>= 2.14), dynamicTreeCut (>= 1.60), flashClust, Hmisc
R (>= 2.14), dynamicTreeCut (>= 1.62), flashClust
R (>= 2.14), dynamicTreeCut (>= 1.62), fastcluster
R (>= 3.0), dynamicTreeCut (>= 1.62), fastcluster
gtools, gWidgets, gWidgetsRGtk2, coda, cairoDevice
R (>= 2.10), gtools, gWidgets, gWidgetsRGtk2, coda,
cairoDevice
R (>= 3.0.0), graphics, stats, Hmisc, nloptr
R (>= 2.10), methods, sp, maptools, rgeos, lattice, splancs
R (>= 2.0.0), waveslim, lattice, leaps, FitAR, qvalue
R (>= 4.0), xtable (>= 1.7-3), ggplot2, scales, utils, digest
R (>= 3.2.5), MASS, stats, grDevices, graphics, lme4, lavaan,
parallel, PearsonDS
R (>= 2.10.0), XLConnectJars (>= 0.1-0), XLConnectJars(<=
0.1-0), rJava, utils, methods
R (>= 2.10.0), XLConnectJars (>= 0.1-1), XLConnectJars(<=
0.1-1), rJava, utils, methods
R (>= 2.10.0), XLConnectJars (>= 0.1-2), XLConnectJars(<=
0.1-2), rJava, utils, methods
R (>= 2.10.0), XLConnectJars (>= 0.1-3), XLConnectJars(<=
0.1-3), rJava, utils, methods
R (>= 2.10.0), XLConnectJars (>= 0.1-4), XLConnectJars(<=
0.1-4), rJava, utils, methods
R (>= 2.10.0), XLConnectJars (>= 0.2-0), XLConnectJars(<=
0.2-0), rJava, utils, methods
R (>= 2.10.0), XLConnectJars (== 0.2-4), rJava, utils, methods
Daniel Veillard's libxml
(ftp://ftp.gnome.org/pub/GNOME/sources/libxml/)
and/or
Jim Clark's expat (http://www.jclark.com/xml)
Daniel Veillard's libxml
(ftp://ftp.gnome.org/pub/GNOME/stable/sources/libxml/)
and/or
Jim Clark's expat (http://www.jclark.com/xml)
grid, lattice, vcd, MASS, colorspace, barcode, gpairs
R (>= 2.15.0), foreign, ggplot2, reshape2, gridExtra, lattice
R (>= 2.10), rgl, geometry, LeafAngle, devtools
R (>= 2.10), rgl, geometry, LeafAngle, gplots
R (>= 3.5.0), rgenoud, purrr, data.table, parallel
R (>= 2.14), boot, MASS, methods, sandwich, survival
R (>= 2.14), boot, MASS, methods, sandwich
glmnet, graphics, gplots, pls, survival, DLBCL, superpc,
utils, methods, stats, Biobase
R (>= 2.15.0), data.table, plyr, caret, seqinr
R(>= 3.1.0), gee, MASS, mvtnorm, matrixStats
R(>= 3.1.0), gee, MASS, mvtnorm, fields, matrixStats
R(>= 3.6.0), gee, MASS, mvtnorm, fields, matrixStats
R (>= 1.8.0), nnet, quantreg, locfit, methods
R (>= 2.10), MASS, nnet, quantreg, locfit
R (>= 2.10), nnet, quantreg, MASS, locfit
R (>= 2.10), abc.data, nnet, quantreg, MASS, locfit
R (>= 2.10), abc, abind, parallel, pls, plyr
R (>= 2.10), abc, abind, parallel, plyr, Hmisc
R (>= 2.10), nlme, lattice, grid, mosaic
R (>= 2.10), zoo, PhysicalActivity, mhsmm, timeDate
R (>= 2.10), zoo, mhsmm, PhysicalActivity
R (>= 2.10), zoo, mhsmm, PhysicalActivity, nleqslv, plyr,
methods
R (>= 2.10), stringr, methods, plyr, XML
R (>= 2.10), graphics, grDevices, stats, utils
R(>= 2.15.1), Matrix, coda, mvtnorm, MCMCpack, spatstat
R(>= 2.15.2), Matrix, coda, mvtnorm, MCMCpack, spatstat,
parallel
Benchmarking, combinat, lpSolveAPI, methods, R (>= 3.5.0),
rmarkdown
R (>= 2.10), methods, MASS, ade4, igraph
R (>= 2.10), methods, MASS, ade4, igraph, ape
R (>= 2.10.0), ade4, tkrplot, shapefiles
R (>= 2.10.0), ade4, tkrplot, shapefiles, sp
R (>= 2.10.0), ade4, tkrplot, shapefiles, sp, graphics
R (>= 2.10.0), sp, methods, gpclib, tripack, ade4,
adehabitatMA, adehabitatLT
R (>= 2.10.0), sp, methods, deldir, rgeos, ade4, adehabitatMA,
adehabitatLT
R (>= 2.10.0), sp, methods, deldir, ade4, adehabitatMA,
adehabitatLT
R (>= 3.0.1), sp, methods, deldir, ade4, adehabitatMA,
adehabitatLT
R (>= 2.10.0), sp, methods, gpclib, ade4, adehabitatMA,
adehabitatHR
R (>= 3.0.1), sp, methods, ade4, adehabitatMA, adehabitatHR
R (>= 2.10.0), sp, methods, rgeos, ade4, adehabitatMA,
adehabitatHR
R (>= 2.10.0), sp, methods, ade4, adehabitatMA, adehabitatHR
R (>= 2.10.0), sp, methods, gpclib, ade4, adehabitatMA,
CircStats
R (>= 2.10.0), sp, methods, ade4, adehabitatMA, CircStats
R (>= 2.10.0), sp, methods, ade4, adehabitatMA, CircStats,
stats
R (>= 2.14.0), grDevices, methods, awsMethods (>= 1.0-1)
R (>= 3.4.1), ade4, adephylo, ape, cluster, methods, phylobase
R (>= 3.4.1), ade4, adegraphics, adephylo, ape, phylobase
R (>= 3.5.0), ade4, adegraphics, adephylo, ape, phylobase
R (>= 3.0), RandomFieldsUtils (>= 0.5.3)
R (>= 3.0), RandomFieldsUtils (>= 0.5.4)
R (>= 2.14.0), car, lme4, pbkrtest, reshape2, stringr
R (>= 2.14.0), car, lme4, pbkrtest (>= 0.3-2), reshape2,
stringr, coin
R (>= 2.14.0), coin, car, lme4, pbkrtest (>= 0.3-2), reshape2,
stringr
R (>= 3.6.2), stats, spatstat, spatstat.geom
R (>= 2.12.2), polynom, fracdiff, hypergeo, sandwich, longmemo
R (>= 2.6.0), polynom, fracdiff, hypergeo, sandwich, longmemo
R (>= 2.12.0), base, stats, grDevices, graphics, Matrix,
igraph
R (>= 2.12.0), stats, grDevices, graphics, Matrix, igraph
rgl, scatterplot3d, fda, colorspace, car
R (>= 2.15.0), stats, graphics, vegan (>= 1.17-12), lattice,
grid, MASS, princurve, mgcv
R (>= 2.5.0), stats, graphics, vegan, lattice, MASS
R (>= 2.10.0), stats, graphics, vegan, lattice, grid, MASS,
princurve
R (>= 2.10.0), stats, graphics, vegan (>= 1.17-12), lattice,
grid, MASS, princurve
R (>= 2.15.0), stats, graphics, vegan (>= 1.17-12), lattice,
grid, MASS, princurve
R (>= 2.13.0), stats, survival, MASS, graphics, grid
antaresRead (>= 0.14.0), antaresProcessing (>= 0.10.2)
antaresRead (>= 0.14.0), antaresProcessing (>= 0.11.0)
antaresRead (>= 2.0.0), antaresProcessing (>= 0.13.0), spMaps
(>= 0.2)
antaresRead (>= 2.2.7), antaresProcessing (>= 0.13.0), spMaps
(>= 0.2)
antaresRead (>= 2.2.9), antaresProcessing (>= 0.13.0), spMaps
(>= 0.2)
antaresRead (>= 0.14.0), antaresProcessing (>= 0.5.0)
R (>= 2.15.0), methods, nleqslv, numDeriv
R (>= 3.0.0), methods, stats, lme4, boot
R (>= 2.8.0), plyr, reshape, lattice, cluster, sp
R (>= 2.9.0), plyr, reshape, lattice, cluster, sp
R (>= 2.9.0), plyr, reshape, lattice, cluster, sp, Hmisc
R (>= 2.10), plyr, reshape, lattice, cluster, sp, Hmisc
R (>= 2.10), methods, plyr, reshape, lattice, grid, cluster,
sp, Hmisc, stringr
R (>= 3.2.3), arules, R.utils, discretization
R (>= 3.2.3), arules (>= 1.5-0), R.utils, discretization
R (>= 3.2.3), arules (>= 1.6-6), R.utils, discretization
methods, stats, modeltools, nnls (>= 1.1)
R (>= 3.0.0), RSQLite, DBI, lubridate, jsonlite
R (>= 3.0.0), RSQLite, DBI, shiny, lubridate
R (>= 2.15.0), methods, graphics, tcltk, corpcor
R (>= 2.2.0), R.oo, R.utils, R.huge, affxparser
R (>= 2.2.0), R.methodsS3, R.utils, R.huge (>= 0.2.0),
affxparser
methods, graphics, stats, ggplot2, R (>= 3.5.0), loo
R (>= 1.8.0), arules, MASS, Rgraphviz, scatterplot3d, vcd,
seriation
R (>= 2.10.0), arules, MASS, scatterplot3d, vcd, seriation
arules (>= 1.0-5), MASS, scatterplot3d, vcd, seriation, igraph
R (>= 2.14.0), arules (>= 1.0-5), MASS, scatterplot3d, vcd,
seriation, igraph
R (>= 2.14.0), arules (>= 1.0-5), MASS, scatterplot3d, vcd,
seriation, igraph0
R (>= 2.14.0), arules (>= 1.0-5), scatterplot3d, vcd,
seriation, igraph
plotrix, vegan, MASS, lmomco, cluster, boot
plotrix, vegan, MASS, lmomco, cluster, boot, akima
R (>= 2.15.1), plotrix, vegan, MASS, tcltk
R (>= 2.15.1), plotrix, MASS, tcltk, mvtnorm, deSolve
stats, exact2x2, exactci, bpcp, ssanv, coin
stats, exact2x2 (>= 1.6.4), exactci, bpcp, coin
R (>= 2.0.1), adehabitat, ade4, gpclib, sp, maptools
R (>= 2.0.1), adehabitat, ade4, gpclib, sp, maptools, splancs,
Hmisc
R (>= 2.11.1), adehabitat, ade4, gpclib, sp, maptools,
splancs, Hmisc
R (>= 2.12.2), splancs, Hmisc, shapefiles
R (>= 2.15.1), splancs, Hmisc, shapefiles
raster, sp, rgdal, maptools, R (>= 2.10)
R (>= 3.2.0), methods, awsMethods (>= 1.0-1), gsl
R (>= 3.4.0), methods, awsMethods (>= 1.0-1), gsl
R (>= 2.14.2), OpenStreetMap, RColorBrewer, XML
R (>= 3.5.0), beautier (>= 2.3), beastier (>= 2.1), mauricer,
tracerer
R (>= 3.5.0), beautier (>= 2.3.5), beastier (>= 2.1.3),
mauricer, tracerer
R (>= 3.1.0), glmnet, lme4, MASS, sva, affyPLM
R (>= 2.14.0), rJava (>= 0.8-4), car, randomForest, missForest
R (>= 2.14.0), rJava (>= 0.9-8), bartMachineJARs (>= 1.0),
car, randomForest, missForest
R (>= 2.14.0), rJava (>= 0.9-8), bartMachineJARs (>= 1.0),
randomForest, missForest
R (>= 2.14.0), rJava (>= 0.9-8), bartMachineJARs (>= 1.2.1),
randomForest, missForest
R (>= 2.14.0), rJava (>= 0.9-8), bartMachineJARs (>= 1.2),
randomForest, missForest
R (>= 3.2.3), ggplot2, survival, methods
R (>= 3.6.0), ggplot2, survival, methods
R (>= 3.6.0), ggplot2, methods, survival
R (>= 2.9.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 1.0-0)
R (>= 2.9.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 1.2-0), bayesLife (>= 0.1-0)
R (>= 2.9.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 1.4-0), bayesLife (>= 0.2-0)
R (>= 2.9.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 1.5-1), bayesLife (>= 0.3-2), bayesPop (>= 0.2-1)
R (>= 2.9.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 1.5-1), bayesLife (>= 0.4-0), bayesPop (>= 0.2-1)
R (>= 2.9.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 1.5-1), bayesLife (>= 0.4-0), bayesPop (>= 2.0-1)
R (>= 2.14.2.0), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 2.1-0), bayesLife (>= 0.6-0), bayesPop (>= 3.1-3)
R (>= 2.14.2), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 3.0-0), bayesLife (>= 1.0-0), bayesPop (>= 3.1-3)
R (>= 2.14.2), cairoDevice, gWidgets, gWidgetsRGtk2, RGtk2,
bayesTFR (>= 4.0-0), bayesLife (>= 2.0-0), bayesPop (>= 4.0-0),
wpp2010
R (>= 2.14.2), gWidgets, gWidgetsRGtk2, bayesTFR (>= 4.0-0),
bayesLife (>= 2.0-0), bayesPop (>= 4.0-0)
R (>= 2.14.2), gWidgets, gWidgetsRGtk2, bayesTFR (>= 4.0-0),
bayesLife (>= 2.0-0), bayesPop (>= 5.0-0)
R (>= 2.14.2), gWidgets, gWidgetsRGtk2, bayesTFR (>= 5.0-0),
bayesLife (>= 3.0-0), bayesPop (>= 6.0-0)
R (>= 2.14.2), gWidgets, gWidgetsRGtk2, bayesTFR (>= 5.0-4),
bayesLife (>= 3.0-1), bayesPop (>= 6.0-0)
R (>= 2.14.1), gplots, xtable, grDevices, mnormt, MASS,
bayesm, boa, e1071, gtools
R (>= 2.12.0), abind, bayesTFR, bayesLife
R (>= 2.0.0), survival, coda, smoothSurv
R (>= 2.10.0), survival, coda, smoothSurv
R (>= 3.0.0), survival, coda, smoothSurv
R (>= 2.14.2), mvtnorm, coda, MASS, wpp2010
R (>= 2.14.2), mvtnorm, coda, MASS, wpp2012
R (>= 2.6), runjags (>= 0.9.2), coda, lattice, stats, utils
R (>= 2.6), runjags (>= 0.9.5), coda, lattice, stats, utils
R (>= 4.0.0), parsnip, bayesforecast, bsts
coda, lattice, MASS, MCMCpack, RColorBrewer
R (>= 3.4.0), rstan (>= 2.10.0), StanHeaders (>= 2.18.0),
stats, graphics, methods
R (>= 2.0.0), methods, stats, graphics, nlme
R (>= 2.0.0), methods, stats, graphics, stats4, numDeriv
R (>= 2.0.0), methods, stats, graphics, stats4, numDeriv,
lattice, MASS
R (>= 2.10.0), minet, c3net, infotheo, igraph, Matrix, lattice
R (>= 2.10.0), c3net, infotheo, igraph, Matrix, lattice
R (>= 3.0.0), c3net, infotheo, igraph, Matrix, lattice
R(>= 2.15.0), nnet, rgl, boot, stats, utils, graphics,
parallel
R(>= 3.5.0), nnet, rgl, boot, stats, utils, graphics, parallel
vegan, parallel, doParallel, foreach, gplots, R (>= 3.2.2)
R (>= 3.2.1), stats, grDevices, graphics
methods, stats, graphics, foreach, grid, Rcpp (>= 0.9.2)
methods, stats, graphics, foreach, iterators, grid, Rcpp (>=
0.9.2)
R (>= 2.10.0), Biobase (>= 2.5.5), methods, geneplotter
R (>= 2.5.0), reshape, nlme, sciplot, plotrix
R (>= 2.5.0), reshape, nlme, sciplot, plotrix, ICSNP
R (>= 2.8.0), reshape, nlme, sciplot, plotrix, ICSNP
R (>= 2.8.0), reshape, nlme, sciplot, plotrix, ICSNP, gdata
R (>= 2.9.0), reshape, nlme, sciplot, plotrix, ICSNP, gdata
R (>= 2.10.1), reshape, nlme, sciplot, plotrix, ICSNP, gdata
R (>= 2.11.0), reshape, nlme, sciplot, plotrix, ICSNP, gdata
R (>= 2.10.0), reshape, nlme, sciplot, plotrix, ICSNP, gdata
R (>= 2.12.0), reshape, nlme, sciplot, plotrix, ICSNP, gdata
R (>= 2.12.0), reshape, nlme, sciplot, plotrix, ICSNP, gdata,
ggplot2, png, grid
R (>= 2.12.0), reshape, nlme, ICSNP, gdata
utils, proto, ggplot2, reshape, relations
R (>= 2.10), utils, proto, ggplot2, reshape, relations
R (>= 2.10), utils, proto, ggplot2, reshape, relations,
psychotools
R (>= 2.10), utils, proto, ggplot2, reshape, relations,
psychotools, scales
R (>= 2.10), utils, proto, ggplot2, relations, psychotools
R (>= 2.0.0), leaps, lars, ElemStatLearn
Rcpp (>= 0.8.6), RcppArmadillo, ggplot2, coda
Rcpp (>= 0.8.6), RcppArmadillo, ggplot2, reshape, coda
Rcpp (>= 0.9.10), RcppArmadillo (>= 0.2.35), reshape, coda
R (>= 2.0.0), strucchange, MASS, forecast
R (>= 2.0.0), graphics, stats, strucchange, MASS, forecast,
zoo, raster, sp
base, stats, R (>= 3.6.0), sp, DescTools
base, stats, R (>= 4.0.0), sp, DescTools
R (>= 2.0), mvtnorm, car, lattice, combinat
R (>= 3.5.0), coda, ggplot2, MASS, survival
R (>= 2.10), MASS, grid, colorspace, lattice
methods, stats, utils, bigmemory (>= 4.0.0)
methods, stats, utils, bigmemory (>= 4.0.0), foreach, biglm
stats, utils, bigmemory (>= 4.0.0), foreach, biglm
R (>= 3.2.0), bigmemory (>= 4.5.0), Matrix, ncvreg
R (>= 2.14), glmnet, lattice, igraph, MASS, Matrix
R (>= 3.2.0), methods, utils, bigmemory.sri
R (>= 3.0), grDevices, graphics, stats, utils, reader (>=
1.0.1), NCmisc (>= 1.1), bigmemory (>= 4.0.0), biganalytics
methods, bigmemory (>= 4.0.0), biganalytics
R (>= 2.10.0), methods, stats, graphics, utils
R (>= 2.11.0), methods, stats, graphics, utils
R (>= 3.1.0), methods, stats, graphics, grDevices, utils
R (>= 2.10), wavethresh, adlift (>= 0.9.2), EbayesThresh
methods, utils, abind, sp, raster, rasterVis, nnet, gbm, mda,
randomForest, rpart, pROC
methods, utils, abind, sp, raster, nnet, gbm, mda,
randomForest, rpart, pROC
stats, utils, sp, raster, parallel, reshape
stats, utils, sp, raster, parallel, reshape, ggplot2
R (>= 3.2.1), stats, utils, sp, raster, parallel, reshape,
ggplot2
R (>= 2.0), gtools, amap, e1071, ggplot2, cluster
R (>= 2.0), gtools, amap, e1071, ggplot2, cluster, rgl
R (>= 2.10), amap, e1071, scales, cluster, rgl
R (>= 2.12), amap, e1071, scales, cluster, rgl
R (>= 3.6.0), amap, e1071, scales, cluster, rgl
R (>= 2.10), amap, e1071, ggplot2, cluster, rgl
R (>= 2.15), utils, rpanel, tkrplot, MASS, boot
R (>= 2.15), rpanel, tkrplot, MASS, lattice, SpatialEpi
R (>= 2.7.0), bootstrap, monreg, R2WinBUGS, coda
R (>= 2.7.0), bootstrap, monreg, R2WinBUGS, coda (>= 0.17.1)
R (>= 3.0.0), MASS (>= 7.3-35), methods, graphics, stats
coda, mnormt, R (>= 3.0.0), R6, stats, truncnorm
R (>= 3.2.4), stringdist, RecordLinkage, plyr
R (>= 2.10.1), stats, methods, BB, MASS, numDeriv, alabama (>=
2010.9-1)
Rcpp (>= 0.10.6), parallel, methods, digest
R (>= 1.7), Amelia, MASS, lavaan, sem, snowfall
R (>= 3.0), Amelia, MASS, snowfall, rsem
R (>= 3.5.0), Amelia, MASS, snowfall, rsem
R (>= 3.5.0), rstan, logspline, bayesplot, LaplacesDemon,
ggplot2
R (>= 2.10), bitops, Matrix, igraph, methods
R (>= 3.5.0), bitops, Matrix, igraph, methods
R (>= 0.99), survival5 for some examples
R (>= 1.0.0), survival5 for some examples
lhs, tgp, mlegp, penalizedSVM, Boruta, pamr, gplots,
colorRamps, ROCR, igraph0
R (>= 3.2.3), QCA, QCAGUI, bootstrap, dplyr
R (>= 3.0.0), igraph (>= 1.0.0), RGtk2, cairoDevice
R (>= 3.1.0), boot, cluster, depthTools, splines, splines2,
stats
MCMCpack, GPArotation, TeachingDemos, blavaan, blme
BoomSpikeSlab, zoo, xts, Boom, R(>= 3.0.2)
glmnet, survival, parallel, mlegp, tgp, peperr, penalizedSVM
lme4(>= 1.1-6), methods, Matrix, stats4, nlme
R (>= 2.0.0), PROcess, e1071, nnet, rpart, bitops
R (>= 2.0.0), PROcess, e1071, nnet, rpart, caTools, XML, digest
R (>= 2.0.0), PROcess, e1071, nnet, rpart, caTools, XML, digest, MASS
R (>= 2.0.0), PROcess, e1071, nnet, rpart, caTools, XML,
digest, MASS
R (>= 2.15.0), lattice, igraph, MASS, Matrix
R (>= 2.11.0), LearnBayes, GenomicRanges
car, heplots (>= 0.8-3), graphics, stats
car, heplots (>= 0.8-6), graphics, stats
R (>= 2.10), car, heplots (>= 0.8.6), graphics, stats
R (>= 3.5.0), car, heplots (>= 0.8-6), graphics, stats
R (>= 2.15.2), corpcor, evd, qpcR, Matrix
R (>= 2.15.2), corpcor, evd, qpcR, Matrix, igraph, fdrtool
R (>= 2.1.1), stats, graphics, MASS, nnet, leaps, survival
R (>= 2.1.1), stats, graphics, MASS, nnet, survival
R (>= 2.10), stats, graphics, MASS, nnet, survival
R (>= 2.14.0), stats, graphics, MASS, nnet
R (>= 2.5.1), lattice, reshape, stats, plyr
R (>= 2.10), lattice, reshape, stats, plyr
R (>= 2.10), lattice, reshape, stats, plyr, cluster
R (>= 2.10), lattice, reshape, stats, plyr, cluster, foreach
R (>= 2.10), lattice, reshape, stats, plyr, cluster, foreach,
pROC
R (>= 2.10), lattice, reshape, stats, plyr, cluster,foreach
R (>= 2.10), lattice, reshape2, stats, plyr, cluster,foreach
R (>= 2.10), cluster, foreach, lattice (>= 0.20), plyr,
reshape2, stats
R (>= 2.10), cluster, foreach, lattice (>= 0.20), methods,
plyr, reshape2, stats
Rcpp (>= 0.9.10), parallel, pcaPP (>= 1.8-1), robustbase
R (>= 3.2.0), parallel, pcaPP (>= 1.8-1), robustbase
graphics, grDevices, stats, utils, R(>= 2.10)
methods, Rcpp (>= 0.9.5), RcppArmadillo (>= 0.2.3), plyr,
ggplot2, statmod
methods, Rcpp (>= 0.9.5), RcppArmadillo (>= 0.2.3), plyr,
ggplot2, statmod, randtoolbox
methods, Rcpp (>= 0.9.5), RcppArmadillo (>= 0.2.3), plyr,
statmod, randtoolbox, reshape2, grid
methods, Rcpp (>= 0.10), RcppArmadillo (>= 0.3.4), plyr,
statmod, randtoolbox, reshape2, dielectric (>= 0.2.2)
methods, Rcpp (>= 0.10), RcppArmadillo (>= 0.3.4), plyr,
statmod, randtoolbox, reshape2, grid
R (>= 3.2.0), data.table, plotly, freqparcoord, magrittr,
partools
R (>= 3.2.0), data.table, plotly, freqparcoord, partools
R (>= 2.6.0), nlme, lattice, randomForest
R (>= 2.6.0), nlme, lattice, randomForest, tcltk
nlme, lattice, randomForest, tcltk, combinat
R (>= 2.10), plotrix, RColorBrewer, rgl, vegan
R(>= 3.2.2), rgdal, raster, foreach, data.table, spatial.tools
R(>= 3.2.2), rgdal, raster, foreach, spatial.tools
R (>= 3.5.0), plyr, dplyr (>= 1.0.10), osmdata, magrittr
R (>= 2.12.0), Hmisc, base, utils, methods, stats, graphics,
grid, lattice, MASS, survival, multcomp, nlme
R (>= 2.14.0), Hmisc, base, utils, methods, stats, graphics,
grid, lattice, MASS, survival, multcomp, nlme
R (>= 2.11.0), Hmisc, base, utils, methods, stats, graphics,
grid, lattice, MASS, survival, multcomp, nlme
R(>= 3.6), changepoint, changepoint.np, methods, ggplot2
class, e1071, lars, MASS, mclust, nnet, pcaPP, pls, rpart, robustbase, som
class, e1071, lars, MASS, mclust, nnet, pcaPP, pls, rpart,
robustbase, som
class, e1071, gclus, lars, MASS, mclust, nnet, pcaPP, pls,
rpart, robustbase, som
R (>= 2.10), class, e1071, gclus, lars, MASS, mclust, nnet,
pcaPP, pls, rpart, robustbase, som
R (>= 2.11.0), methods, stats, pls, plyr, reshape2, ggplot2
R (>= 3.5.0), gamlss.tr, gamlss, data.table
R (>= 3.3.0), kyotil, MASS, boot, splines
R (>= 3.0.0), kyotil, MASS, boot, splines
R (>= 3.2.0), kyotil, MASS, boot, splines
R (>= 3.5.0), data.table, magrittr, rlang
R (>= 3.5.0), rlang, magrittr, data.table
R (>= 2.0.0), sandwich, lmtest, ggplot2, survey
R (>= 2.0.0), sandwich, lmtest, ggplot2, survey, Matrix
R (>= 2.10), sandwich, lmtest, ggplot2, survey, Matrix
R (>= 2.0), methods, cluster, kohonen, class, mclust
methods, Rcpp (>= 0.9.10), RcppArmadillo
R (>= 2.2), grDevices, stats, class, e1071
rggobi, rpart, MASS, nnet, class, e1071, reshape
rpart, MASS, nnet, class, e1071, reshape
Rcpp (>= 0.9.10), plyr, ggplot2, R2WinBUGS, lattice, reshape2,
methods, R2jags
R (>= 2.9.0), utils, methods, grid, ggplot2, sp, raster,
reshape2
R (>= 3.0.1), methods, igraph, stats, utils
R (>= 3.0.1), methods, igraph, stats, utils, reshape2,
data.table
R (>= 3.0.1), methods, igraph, stats, utils, reshape2,
data.table, MASS
R (>= 3.0.1), methods, igraph, stats, utils, reshape2, MASS
ts, netCDF, akima, chron, xtable, ctest, R (>= 1.4.1)
ts, netCDF, akima, chron, xtable, ctest, mva, R (>= 1.4.1)
ts, netCDF, date, akima, xtable, ctest, mva, R (>= 1.4.1)
ts, netCDF, akima, xtable, ctest, mva, R (>= 1.4.1)
ts, netCDF, akima, xtable, ctest, mva, R (>= 1.8.1)
ts, ncdf, akima, ctest, mva, R (>= 1.8.1)
cloudRmpiJars (>= 1.1), rreval (>= 1.1), digest
R (>= 3.5), flexclust, methods, graphics
R (>= 2.2.0), mvoutlier, cluster, randomForest, tcltk, e1071, rpart, class, grid, mclust, fpc, flexclust, vegan, clue, mvpart, lattice, kernlab, Rcmdr
R (>= 2.2.0), mvoutlier, cluster, randomForest, tcltk, e1071, rpart, class, grid, mclust02, fpc, flexclust, vegan, clue, mvpart, lattice, kernlab, compositions, Rcmdr
R (>= 2.2.0), mvoutlier, cluster, randomForest, tcltk, e1071, rpart, class, grid, mclust02, fpc, flexclust, vegan, clue, mvpart, lattice, kernlab, compositions
R (>= 2.2.0), mvoutlier, cluster, randomForest, tcltk, e1071,
rpart, class, grid, mclust, fpc, flexclust, vegan, clue,
mvpart, lattice, kernlab, compositions
R (>= 2.2.0), mvoutlier, cluster, randomForest, tcltk, e1071,
rpart, class, grid, mclust, flexclust, vegan, clue, mvpart,
lattice, kernlab, compositions
ade4, cluster, R2HTML, e1071, rgl, MASS, mlbench
corpcor, e1071, ggplot2, randtoolbox, irlba
R (>= 3.2), mclust (>= 5.1), BMA (>= 3.18), foreach, iterators
R (>= 3.2), mclust (>= 5.3), BMA (>= 3.18), foreach, iterators
R (>= 3.2), mclust (>= 5.2), BMA (>= 3.18), foreach, iterators
ParamHelpers (>= 1.3), BBmisc (>= 1.6), checkmate (>= 1.1),
smoof (>= 1.1)
ParamHelpers (>= 1.8), BBmisc (>= 1.6), checkmate (>= 1.1),
smoof (>= 1.4)
ncdf4, RNetCDF, sp, raster, stats, fields
R (>= 2.4.1), SparseM,quantreg, splines,grDevices,graphics,stats,utils
R (>= 2.5.1), SparseM,quantreg, splines,grDevices,graphics,stats,utils
R (>= 2.6.2), SparseM,quantreg,
splines,grDevices,graphics,stats,utils
SparseM, quantreg (>= 4.65),
splines,grDevices,graphics,stats,utils
R (>= 3.0.0), grDevices, graphics, stats, parallel
ggplot2, plyr, useful, stringr, reshape2
R (>= 2.0.0), methods, survival, mvtnorm
R (>= 2.0.0), methods, survival, mvtnorm, modeltools
R (>= 2.2.0), methods, survival, mvtnorm, modeltools
R (>= 2.2.0), methods, survival, mvtnorm, modeltools (>= 0.2-9)
R (>= 2.2.0), methods, survival, mvtnorm (>= 0.8-0), modeltools (>= 0.2-9)
R (>= 2.2.0), methods, survival, mvtnorm (>= 0.8-0),
modeltools (>= 0.2-9)
R (>= 3.1.0), methods, stats, graphics, grDevices, utils,
cubature
R (>= 3.1.0), methods, stats, graphics, grDevices, utils,
cubature, MASS
R (>= 3.5.3), methods, stats, graphics, grDevices, utils,
cubature, MASS
R (>= 2.10), Hmisc, munsellinterpol, pracma
R (>= 2.10), Hmisc, munsellinterpol, pracma, sp
R (>= 2.11.0), xtable, Hmisc, gdata, tcltk, foreign
R (>= 2.13.1), xtable, Hmisc, gdata, survival, oce, tcltk2,
epitools
R (>= 2.13.1), xtable, Hmisc, gdata, survival, oce, epitools
R (>= 2.13.1), Hmisc, xtable, gdata, SNPassoc
R (>= 2.13.1), Hmisc, xtable, gdata, HardyWeinberg
R (>= 2.13.1), Hmisc, gdata, xtable, SNPassoc
R (>= 2.10), antitrust (>= 0.99.11), trade (>= 0.5.4), shiny,
rhandsontable
R (>= 2.2.0), rgl, tensorA, robustbase, energy
R (>= 2.2.0), tensorA, robustbase, energy, bayesm
R (>= 2.2.0), tensorA, robustbase, bayesm
robCompositions, compositions, mvoutlier, robustbase, RGtk2,
MASS, nnet, boot
R (>= 3.3.2), jsonlite, assertthat, bigrquery, DBI
R (>= 2.12.0), caret, ggplot2, grid, randomForest, e1071,
methods
R (>= 2.12.0), caret, ggplot2, e1071, methods, grid
graphics, stats, randomForest, parallel, foreach, doParallel,
mlbench
R (>= 3.5.0), stats, gmp, methods, grid, vcd
R (>= 2.15.0), mvtnorm, BMS, gregmisc, tseries, coda
R (>= 2.10), grDevices, interp, RColorBrewer
R (>= 2.2.1), Design, lattice, nlme, Hmisc, geepack, MASS
R (>= 3.0.1), ape, phytools, cluster, geiger
R (>= 3.1.2), ape, geiger, MASS, phytools
R (>= 3.5.0), phytools, MASS, ape, cluster, geiger
methods, mvtnorm, scatterplot3d, sn, adapt
methods, mvtnorm, scatterplot3d, sn, adapt, pspline
methods, mvtnorm, scatterplot3d, sn, pspline
R (>= 2.14), methods, mvtnorm, scatterplot3d, pspline
methods, copula, vines, mvtnorm, truncnorm
ape, nloptr, numDeriv, expm, corpcor, phangorn, parallel,
rgenoud
R (>= 3.0), raster, igraph, oro.dicom, plyr
R (>= 3.0.1), ggplot2, gplots, RColorBrewer, igraph, stats,
grDevices
R (>= 3.1.0), graphics, diagram, rgl, stats
R (>= 3.2.0), graphics, diagram, rgl, stats
R (>= 3.0.0), RCurl, bitops, httr, rjson
R (>= 3.1.0), ComplexHeatmap, circlize, stats
Matrix, parallel, survival, timereg, R (>= 2.13.0)
survival, bdsmatrix, nlme, R (>= 2.12.0)
survival, bdsmatrix (>= 1.3), nlme, Matrix (>= 1.0), methods,
R (>= 2.12.0)
survival (>= 2.36.14), methods, bdsmatrix(>= 1.3)
R (>= 3.2.0), MESS, graphics, stats, multtest, qvalue, limma
multiway, glmnet, e1071, randomForest, doParallel
multiway, glmnet, e1071, randomForest, nnet
coda, lme4, Matrix, methods, stats, tweedie
amer, biglm, coda, lme4, Matrix, methods, tweedie
R (>= 2.10), amer, biglm, coda, ggplot2, lme4, Matrix, methods
R (>= 2.10), biglm, coda, ggplot2, lme4, Matrix, splines,
methods
R (>= 2.10), coda, Matrix, splines, methods
R (>= 3.2.0), coda, Matrix, splines, methods
pcaMethods (>= 1.20.0), Biobase, pls, methods
pcaMethods (>= 1.24.0), Biobase, pls, methods
pcaMethods (>= 1.24.0), Biobase, methods
R (>= 2.10), pcaMethods (>= 1.56.0), Biobase, methods
pcaMethods (>= 1.20.2), Biobase, pls, methods
MASS, conf.design, gregmisc, combinat, Dopt
R (>= 1.8.0), Matrix, tseriesChaos, fields
R (>= 3.0.0), Matrix, tseriesChaos, fields
R (>= 3.0.0), Matrix, tseriesChaos, fields, pracma
R (>= 3.0.0), Matrix, tseriesChaos, fields, plot3D, pracma
R (>= 3.0.0), crqa, tm, corpus, gutenbergr, RCurl
R (>= 3.5.0), crrSC, abind, pracma, survival, stats
R (>= 2.10), raster, Matrix, fda, gdistance, sp
R (>= 2.14.0), SuperLearner, tmle, glmnet, stats
R(>= 3.0.0), methods, coda, foreach, parallel, stats,
graphics, utils
R(>= 4.0.0), methods, coda, foreach, parallel, stats,
graphics, utils
R (>= 2.9.2), cudaBayesregData, oro.nifti
R (>= 3.0.0), cudaBayesregData, oro.nifti
feature, flowCore, geometry, hdrcde, ks, misc3d, ptinpoly, rgl
R (>= 3.5.0), htmlwidgets, shiny, jsonlite, graph, base64enc
stats, dynlm, wavethresh, AER, formula.tools, plyr
graphics, stats, nardl, dynlm, R (>= 3.5.0)
graphics, stats, nardl, dynlm, R (>= 3.6.0)
R (>= 3.0.0), methods, stats, graphics, grDevices, utils,
lattice, e1071
R (>= 3.1.0), methods, stats, graphics, grDevices, utils,
lattice, e1071
R (>= 3.5.0), methods, stats, graphics, grDevices, utils,
lattice, e1071, DescTools
R (>= 3.5), adegenet (>= 2.0.0), ggplot2, dplyr
R (>= 3.3.0), lubridate, stringr, Matrix
R (>= 3.3.0), lubridate, stringr, Matrix, progress
R (>= 2.15.1), grDevices, Hmisc, stringr, shiny, testthat,
xtable
RJSONIO, XML, RCurl, methods, RSQLite, xts
RJSONIO, XML, RCurl, base64, methods, RSQLite, markdown, xts
R (>= 2.10), stats, graphics, labdsv, vegan, cluster, nnet,
tree, rpart, MASS
R (>= 3.1.0), cluster, labdsv, vegan, nnet, graphics, stats,
grDevices, tree
R (>= 3.5.0), spatstat.core, spatstat.geom, Rcpp (>= 0.12.14),
ggplot2
R (>= 2.5.0), grDevices, graphics, splines
R (>= 2.6.0), grDevices, graphics, methods, utils
R (>= 2.6.0), grDevices, graphics, methods, oro.nifti, utils
R (>= 2.6.0), grDevices, graphics, methods, oro.nifti (>=
0.2.8), utils
R (>= 2.14.0), grDevices, graphics, methods, oro.nifti (>=
0.2.8), parallel, utils
R (>= 2.14.0), grDevices, graphics, methods, oro.nifti (>=
0.3.0), parallel, utils
R (>= 2.7.0), rjags, coda (>= 0.13), R2WinBUGS, mvnormtest
R (>= 2.7.0), rjags, coda (>= 0.13), R2WinBUGS, snow
R (>= 2.7.0), rjags, coda (>= 0.13), R2WinBUGS, snow, rlecuyer
methods, stats4, dclone, rjags, coda, snow
methods, stats4, dclone (>= 1.4-1), rjags, coda, snow,
R2WinBUGS
methods, stats4, dclone (>= 1.6-0), rjags, coda, R2WinBUGS,
parallel
methods, stats4, dclone (>= 1.7-2), rjags, coda, R2WinBUGS,
parallel, lattice
R (>= 2.15.0), methods, stats4, dclone (>= 1.7-2), rjags,
coda, R2WinBUGS, parallel, lattice
stats, utils, graphics, grDevices, MASS, class, robustbase
stats, utils, graphics, grDevices, MASS, class, robustbase,
sfsmisc
R (>= 2.10), stats, utils, graphics, grDevices, MASS, class,
robustbase, sfsmisc, geometry
stats, utils, graphics, grDevices, MASS, class, robustbase,
sfsmisc, geometry
R (>= 2.10.0), graph (>= 1.20), Rgraphviz (>= 1.21.3),
KEGGgraph (>= 1.1.0), RBGL, genefilter, gam, lattice, coda
R (>= 2.10.0), graph (>= 1.20), Rgraphviz (>= 1.21.3),
KEGGgraph (>= 1.1.0), RBGL, genefilter, gam, lattice, coda,
gplots
R (>= 2.10.0), genefilter, gam, lattice, coda, gplots, graph,
igraph0, RBGL, cluster
R (>= 2.14), genefilter, gam, lattice, coda, gplots, graph,
igraph0, RBGL, cluster
R (>= 2.10.0), genefilter, gam, lattice, coda, gplots, graph,
igraph, RBGL
R (>= 2.14), lattice, coda, igraph, graph
stringr, XLConnect, XML, lubridate, reshape2, RCurl, plyr
R (>= 4.0.0), Formula, tensorflow (>= 2.2.0), keras (>=
2.2.0), tfprobability (>= 0.15), deepregression
R (>= 2.15), methods, affy, affxparser, R.utils, ggplot2,
reshape, utils
R (>= 2.15), methods, affy, affxparser, plyr, R.utils, utils,
oligo
R (>= 2.15), methods, affy, affxparser, R.utils, utils, oligo
R (>= 2.6.0), forecast (>= 1.0), rainbow, ftsa
R (>= 2.10), forecast (>= 3.09), rainbow, ftsa
R (>= 2.15.2), forecast (>= 3.09), rainbow, ftsa, cobs
R (>= 2.10), boot, pspline, zoo, graphics, grDevices, stats,
base
R (>= 3.2.0), forecast, graphics, grDevices, pspline, stats,
zoo
R (>= 2.9.1), stats, nnet, methods, MASS, MCMCpack
R (>= 2.10.1), stats, nnet, methods, MASS, Rsolnp
R (>= 2.11.1), stats, nnet, methods, MASS, Rsolnp
R (>= 2.12.2), stats, nnet, methods, MASS, Rsolnp, stats4
R (>= 2.13.1), stats, nnet, methods, MASS, Rsolnp, stats4
R (>= 2.14.2), stats, nnet, methods, MASS, Rsolnp, stats4
R (>= 2.15.0), stats, nnet, methods, MASS, Rsolnp, stats4
R (>= 2.15.2), stats, nnet, methods, MASS, Rsolnp, stats4
R (>= 2.5.0), abind, grDevices, rgl, circular
R (>= 3.2.0), abind, grDevices, circular, rgl
R (>= 2.10), RSQLite, plyr, reshape2, colorspace
R (>= 3.3), RSQLite (>= 1.1.2), shinydashboard, shinyBS, DT
R (>= 3.0.2), lme4, stats4, plyr, data.table
forecast, future.apply, stats, future, testthat
R (>= 3.1.0), methods, Matrix, numDeriv, boot
R (>= 3.1.0), methods, Matrix, numDeriv, boot, MASS
R (>= 3.4.0), methods, Matrix, boot, MASS, car, sandwich
R (>= 2.10), stringdist, vegan, ggplot2, tidyr
R (>= 3.2.2), ggplot2, gridExtra, methods, stats
R (>= 3.2.2), CTT, ggplot2, methods, nnet, reshape2, stats
R (>= 3.2.2), CTT, ggplot2 (>= 2.2.1), methods, nnet,
reshape2, stats
R (>= 3.2.2), CTT, ggplot2 (>= 2.2.1), methods, msm, nnet,
reshape2, stats
R (>= 3.1), CTT, ggplot2 (>= 2.2.1), methods, msm, nnet,
reshape2, stats
R (>= 2.01), deSolve, rootSolve, bvpSolve, ReacTran, deTestSet
R (>= 2.01), deSolve, rootSolve, bvpSolve, ReacTran, diagram,
deTestSet, scatterplot3d
R (>= 3.4.0), Biobase, missMethyl, stats
R (>= 2.14.0), rgdal, raster, methods, ggplot2
R (>= 2.14.0), rgdal, raster, methods, ggplot2, reshape2
R (>= 2.4.0), scatterplot3d, igraph, Matrix
R (>= 2.6.0), gWidgets, MASS, pls, e1071, adabag,
randomForest, ROCR, caTools, class, ellipse
R (>= 2.14.0), disclap, cluster, parallel
R(>= 2.2.0), methods, graphics, startupmsg
R(>= 2.2.0), methods, graphics, startupmsg, sfsmisc
R(>= 2.2.0), methods, graphics, startupmsg, sfsmisc, SweaveListingUtils
R(>= 2.2.0), methods, graphics, startupmsg, sfsmisc,
SweaveListingUtils
R(>= 2.14.0), methods, graphics, startupmsg, sfsmisc,
SweaveListingUtils
R(>= 2.14.0), methods, graphics, startupmsg, sfsmisc
R(>= 3.4), methods, graphics, startupmsg, sfsmisc
R(>= 2.2.0), tools, distr(>= 1.8.0), startupmsg
R(>= 2.2.0), tools, distr(>= 1.9.0), startupmsg
R(>= 2.6.0), tools, distr(>= 2.0.0), startupmsg
R(>= 2.6.0), tools, distr(>= 2.1), startupmsg, distrEx(>=
2.1), distrSim(>= 2.1), distrTEst(>= 2.1), distrTeach(>= 2.1),
distrMod(>= 2.1)
R(>= 2.6.0), tools, startupmsg, distr(>= 2.2.0), distrEx(>=
2.2.0), distrSim(>= 2.2.0), distrTEst(>= 2.2.0), distrTeach(>=
2.2.0), RandVar(>= 0.7), distrMod(>= 2.2.0), MASS, methods
R(>= 2.8.0), methods, graphics, mvtnorm, setRNG(>= 2006.2-1),
distr(>= 2.2), distrEx(>= 2.2), distrSim(>= 2.2), startupmsg
R(>= 2.8.0), methods, graphics, mvtnorm, setRNG(>= 2006.2-1),
distr(>= 2.2), distrEx(>= 2.2), distrSim(>= 2.2)
R(>= 2.2.0), methods, distr(>= 1.7) , evd, startupmsg
R(>= 2.2.0), methods, distr(>= 1.8), evd, startupmsg
R(>= 2.2.0), methods, distr(>= 1.9), evd, startupmsg
R(>= 2.6.0), methods, distr(>= 2.0), evd, startupmsg
R(>= 2.6.0), methods, distr(>= 2.1), evd, actuar, startupmsg
R(>= 2.6.0), methods, distr(>= 2.2), evd, actuar, startupmsg
R (>= 2.10), methods, distr (>= 2.2), startupmsg
R(>= 2.6.0), methods, startupmsg, distr(>= 2.0), distrEx(>= 2.0), RandVar(>= 0.6.3), MASS, stats4
R(>= 2.6.0), methods, startupmsg, distr(>= 2.0), distrEx(>=
2.0), RandVar(>= 0.6.3), MASS, stats4
R(>= 2.6.0), methods, startupmsg, distr(>= 2.1), distrEx(>=
2.1), RandVar(>= 0.6.3), MASS, stats4
R(>= 2.6.0), methods, startupmsg, distr(>= 2.2), distrEx(>=
2.2), RandVar(>= 0.6.3), MASS, stats4
R(>= 2.6.0), methods, startupmsg, distr(>= 2.2), distrEx(>=
2.4), RandVar(>= 0.6.3), MASS, stats4
R(>= 2.2.0), methods, graphics, setRNG, distr
R(>= 2.2.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 1.7), startupmsg
R(>= 2.2.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 1.8), startupmsg
R(>= 2.2.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 1.9), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 2.0), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>=
2.0), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>=
2.1), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>=
2.2), startupmsg
R(>= 2.2.0), methods, graphics, setRNG, distr, distrSim
R(>= 2.2.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 1.7), distrSim(>= 1.7), startupmsg
R(>= 2.2.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 1.8), distrSim(>= 1.8), startupmsg
R(>= 2.2.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 1.9), distrSim(>= 1.9), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>= 2.0), distrSim(>= 2.0), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>=
2.0), distrSim(>= 2.0), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>=
2.1), distrSim(>= 2.1), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1), distr(>=
2.2), distrSim(>= 2.2), startupmsg
R(>= 2.6.0), methods, graphics, setRNG(>= 2006.2-1),
distrSim(>= 2.2), startupmsg
R(>= 3.4), methods, graphics, setRNG(>= 2006.2-1), distrSim(>=
2.2)
R(>= 2.2.0), methods, distr(>= 2.0), distrEx(>= 2.0), startupmsg
R(>= 2.2.0), methods, distr(>= 2.0), distrEx(>= 2.0),
startupmsg
R(>= 2.2.0), methods, distr(>= 2.1), distrEx(>= 2.1),
startupmsg
R(>= 2.2.0), methods, distr(>= 2.2), distrEx(>= 2.2),
startupmsg
R (>= 2.15), Matrix, gamlr, parallel, methods
R (>= 2.15), Matrix, gamlr, parallel, methods, stats
R (>= 2.11.0), methods, stats4, caTools, RColorBrewer
R (>= 2.13.0), methods, stats4, caTools, RColorBrewer
R (>= 3.0.0), plotrix, shiny, ggplot2, qgraph
R (>= 2.4), deSolve (>= 1.5), ape, subplex
R (>= 2.4), deSolve (>= 1.7), ape, subplex
R (>= 2.10), deSolve (>= 1.7), ape, subplex
splancs, spatstat.geom, spatstat (>= 2.0-0)
mvtnorm, methods, graphics, MASS, Matrix, ellipse
R (>= 2.15.0), methods, mvtnorm, Matrix, MASS
R (>= 2.10), survival, R2HTML, multcomp, lme4, snow, MASS
future (>= 1.4.0), foreach (>= 1.4.3), iterators (>= 1.0.8),
parallel, utils
future (>= 1.6.1), foreach (>= 1.4.3), iterators (>= 1.0.8),
parallel, utils
future (>= 1.6.2), foreach (>= 1.4.3), iterators (>= 1.0.8),
parallel, utils
R (>= 2.13), methods, stats, foreach, rstream (>= 1.3.1)
R (>= 2.14), methods, stats, foreach, parallel
R (>= 2.14), methods, stats, foreach, parallel, iterators
R (>= 2.14), methods, stats, foreach, parallel, iterators,
pkgmaker (>= 0.8)
R (>= 2.14), methods, stats, foreach, parallel, iterators,
pkgmaker (>= 0.11), rngtools
R (>= 2.14), methods, stats, foreach, parallel, iterators,
pkgmaker (>= 0.9), rngtools
R (>= 3.2.1), ggplot2,dplyr, gridExtra, gtable
R (>= 3.2.0), ggplot2, gridExtra, gtable
R (>= 2.0.0), lattice, MASS, nlme, plotrix
R (>= 2.0.0), alr3, lattice, MASS, nlme, plotrix
R (>= 2.0.0), alr3, lattice, magic, MASS, nlme, plotrix
R (>= 2.0.0), lattice, magic, MASS, nlme, plotrix, methods
R (>= 2.0.0), alr3, lattice, magic, MASS, nlme, plotrix,
methods
R (>= 2.0.0), alr3, gtools, lattice, magic, MASS, nlme,
plotrix, methods, stats4
R (>= 2.0.0), alr3, gtools, lattice, magic, MASS, nlme,
plotrix, methods, stats, stats4
R (>= 2.0.0), car, gtools, MASS, magic, methods, plotrix,
stats
stats, nleqslv, survival, R (>= 3.0.0), Rcpp, data.table
R (>= 2.12.0), MCMCpack, SparseM, corpcor, car
R (>= 2.12.0), MCMCpack, SparseM, corpcor
R (>= 2.10.0), mgcv (>= 1.7), mrds,ggplot2,Distance
R (>= 2.5.0), methods, adimpro, fmri, rgl
R (>= 2.5.0), methods, adimpro, fmri, rgl, gsl
R (>= 2.10.0), methods, adimpro, fmri, rgl, gsl
R (>= 2.14.0), methods, awsMethods, adimpro, oro.nifti,
oro.dicom, rgl, gsl, parallel, fmri
R (>= 2.14.0), methods, awsMethods (>= 1.0-1), adimpro,
oro.nifti, oro.dicom, rgl, gsl, parallel
R (>= 2.14.0), methods, awsMethods (>= 1.0-1), adimpro,
oro.nifti (>= 0.3.9), oro.dicom, rgl, gsl, parallel
R (>= 3.1.0), awsMethods (>= 1.0-1), adimpro, rgl
R (>= 3.0.0), zoo, raster, ggplot2, methods
R (>= 3.2.0), zoo, raster, snow, ggplot2
R (>= 3.2.0), proxy, dtw, ggplot2, rngtools
R (>= 3.2.0), methods, proxy (>= 0.4-16), clue, dtw, ggplot2
R (>= 3.0.0), rbenchmark, microbenchmark
R (>= 3.3.2), stats, graphics, utils, survival
R (>= 3.3.0), stats, graphics, utils, survival
R (>= 3.5.0), stats, graphics, utils, survival
glamlasso (>= 3.0), abind, MortalitySmooth
methods, survival, plyr, reshape, ggplot2, nleqslv
R (>= 2.14.0), lmtest, nortest, stats, som, Kendall,
KernSmooth, moments, fields, spam, tseries, quadprog, akima,
ggplot2
R (>= 2.14.0), fields, ggplot2, Kendall, KernSmooth, lmtest,
moments, nortest, quadprog, som, spam, stats, tgp, tseries
R (>= 3.0.2), ggplot2, moments, tgp, tseries
plotmo (>= 3.1.5), TeachingDemos (>= 2.10)
R (>= 3.0), SpecsVerification, stats, utils
R (>= 3.0), SpecsVerification (>= 0.4), stats, utils
R (>= 3.0), SpecsVerification (>= 0.5), stats, utils
R(>= 2.11.1), graphics, fields, plotrix, grDevices,
RColorBrewer
R (>= 3.5.0), survey, BIFIEsurvey, progress, lavaan (>= 0.6-7)
R (>= 3.5.0), survey (>= 4.1-1), BIFIEsurvey, progress, lavaan
(>= 0.6-7)
R (>= 4.0), survey (>= 4.1-1), BIFIEsurvey, progress, lavaan
(>= 0.6-7)
R (>= 4.1), survey (>= 4.1-1), BIFIEsurvey, progress, lavaan
(>= 0.6-7)
R (>= 3.0.0), sads, vegan, breakaway, methods
splancs, spatstat (>= 1.4.0), fields, akima
R (>= 3.5.0), raster, rgeos, stats, ggplot2, sf, gdalUtils
R (>= 3.5.0), raster, sf, parallel, rasterVis
R (>= 2.01), diagram,rootSolve, deSolve,mapdata,seacarb,scatterplot3d, deldir
R (>= 2.01), diagram,rootSolve,
deSolve,mapdata,seacarb,scatterplot3d, deldir
R (>= 2.01), rootSolve, diagram, deSolve
R (>= 2.01), rootSolve, shape, diagram, deSolve
R (>= 3.5.0), utility, rivernet, jpeg, fs
BBmisc (>= 1.6), smoof (>= 1.4), ParamHelpers (>= 1.1)
R (>= 3.1), shiny, shinydashboard, rChoiceDialogs
R (>= 3.1),shiny, shinydashboard, rChoiceDialogs
R (>= 4.0.0), plotfunctions (>= 1.4), data.table
R (>= 3.1.1), bigsplines, eegkitdata, ica, rgl
R (>= 2.10), eegkitdata, bigsplines, ica, rgl
R (>= 2.10), eegkitdata, bigsplines, ica, rgl, signal
R (>= 2.15.1), stringr, ggplot2, plyr, proto, grid,
maps,mapproj
R (>= 2.4.0), lattice, grid, MASS, nnet, colorspace
R (>= 2.4.0), lattice, grid, nlme, MASS, nnet, colorspace
R (>= 2.10), lattice, grid, nlme, MASS, nnet, colorspace
R (>= 2.5.0), lattice, grid, MASS, nnet, colorspace
R (>= 2.10), lattice, grid, MASS, nnet, colorspace
R (>= 3.2.0), readr, dplyr, ensurer, magrittr
R (>= 2.13.0), stats, graphics, utils, survival
R (>= 3.0.0), survival (>= 2.37-6), stats, graphics
eiPack, methods, tmvtnorm, foreach, ggplot2,
eiPack, methods, tmvtnorm, foreach, ggplot2, ei
R (>= 3.4.0), stats, grDevices, graphics, utils, R2jags
R (>= 2.5.0), MASS, emulator, calibrator
R (>= 2.5.0), emulator, calibrator, MASS
deSolve, numDeriv, parallel, phenology, Hmisc, R (>= 2.14.0)
deSolve, parallel, phenology, Hmisc, R (>= 2.14.2)
deSolve, parallel, HelpersMG, coda, polynom, R (>= 2.14.2)
deSolve, polynom, parallel, HelpersMG (>= 1.2),R (>= 2.14.2)
deSolve, optimx, numDeriv, parallel, HelpersMG (>= 1.8.7),R
(>= 2.14.2)
deSolve, optimx, numDeriv, parallel, HelpersMG (>= 2.0),R (>=
2.14.2)
deSolve, optimx, numDeriv, parallel, HelpersMG (>= 3.6.6),R
(>= 3.5)
deSolve, optimx, numDeriv, parallel, HelpersMG (>= 4.0),R (>=
4.0)
deSolve, optimx, numDeriv, parallel, HelpersMG (>= 5.3-1),R
(>= 4.1)
deSolve, optimx, numDeriv, parallel, HelpersMG (>= 5.5),R (>=
4.1)
R (>= 2.10), stats, methods, tcltk, MASS
R (>= 2.10), sna, network, MASS, stringr, xlsx
R (>= 2.10), sna, network, MASS, stringr, gdata
R (>= 2.10), MASS, stringr, sna, network, gdata
R (>= 2.10), MASS, stringr, sna, network, gdata, stats, utils,
graphics
R (>= 2.9), stats, methods, parallel, modeest, fitdistrplus,
sn
R (>= 2.9), stats, methods, parallel, modeest, fitdistrplus,
sn, investr
R (>= 2.9), stats, methods, parallel, fitdistrplus, sn,
investr
R (>= 3.5.0), spatstat.geom, spatstat.core, spatstat.linnet,
spatstat (>= 2.0-0)
R (>= 2.6.2), foreign, survival, MASS, nnet
R (>= 3.0.0), methods, MASS, ape, adegenet, network,
networkDynamic, ggplot2, ggmap, sna, scales, plyr, reshape2,
mapproj, RColorBrewer, knitr
R (>= 3.3.2), shiny, deSolve, phaseR, polspline
R (>= 3.1.0), Matrix, glasso, tmvtnorm, igraph, parallel
R (>= 2.10.0), lassoshooting (>= 0.1.1), Matrix, methods
R (>= 2.12.0), lassoshooting (>= 0.1.4), Matrix, methods, irr,
igraph, elasticnet, survival
R (>= 2.12.0), lassoshooting (>= 0.1.4), Matrix, methods, irr,
igraph0, elasticnet, survival
R (>= 2.10.0), lassoshooting (>= 0.1.3), Matrix, methods, irr,
igraph, elasticnet, survival
R (>= 2.12.0), lassoshooting (>= 0.1.4), Matrix, methods,
graph
R (>= 2.12.0), lassoshooting (>= 0.1.4), Matrix, methods
R (>= 2.10.0), systemfit, lmtest, tseries, ggplot2
R (>= 2.14.0), systemfit, lmtest, tseries, ggplot2
R (>= 3.0.0), systemfit, lmtest, tseries, ggplot2, urca
network, robustbase, Matrix, trust, nlme, coda
statnet.common (>= 3.1-0), network (>= 1.7-1), robustbase,
Matrix, trust, nlme, coda
statnet.common (>= 3.1-0), network (>= 1.7-1)
statnet.common (>= 3.1-0), network (>= 1.11)
statnet.common (>= 3.3), network (>= 1.13)
statnet.common (>= 4.0.0), network (>= 1.13)
statnet.common (>= 3.1-0), ergm (>= 3.1-0), network
statnet.common (>= 3.1), ergm (>= 3.4), network
statnet.common (>= 3.1), ergm (>= 3.9), network
clim.pact, cyclones, akima, ncdf, sgeostat, fields, spam, R
(>= 2.2.0)
R (>= 3.0), paramlink (>= 0.9-7), Familias, forensim
R (>= 3.0), paramlink, Familias, forensim
R (>= 3.2.5), ProfileLikelihood, sandwich, foreach, doParallel
rstan, rstanarm, loo, lattice, stats, utils, graphics,
grDevices
rstan, rstanarm, lattice, stats, utils, graphics, grDevices
stats, graphics, MASS, splines, gsl, SparseM, grDevices
stats, graphics, MASS, splines, gsl, SparseM
R (>= 2.0.0), stats, graphics, tools, utils
R (>= 2.14.0), stats, graphics, tools, utils
R (>= 2.14.0), mboost (>= 2.1.0), BayesX (>= 0.2-4), quadprog,
stats, parallel
R (>= 3.5.0), stats, parallel, mboost (>= 2.1.0), BayesX (>=
0.2-4), Matrix
R (>= 3.0.0), methods, sp, spdep, rgeos, deldir
R (>= 2.10.0), Lmoments, distillery, car
R (>= 2.10.0), Lmoments, distillery (>= 1.0-4), car
R (>= 2.9.2), reshape, grid, iplots, MASS
R (>= 2.12.0), reshape2, grid, MASS, colorspace, plyr
R (>= 2.14.0), grid, MASS, colorspace, hexbin, scales,
ggplot2, reshape, plyr
R (>= 2.15.0), grid, MASS, colorspace, hexbin, scales,
ggplot2, reshape, plyr
R (>= 3.0.0), grid, MASS, colorspace, hexbin, scales, ggplot2,
reshape, plyr, TSP
foreach, ggplot2, reshape, plyr, parallel, Jmisc, digest
R (>= 2.4.0), methods, timeDate, timeSeries, fBasics
R (>= 2.15.1), timeDate, timeSeries, fBasics
R (>= 2.6.0), methods, sn, MASS, robustbase, timeDate,
timeSeries, fBasics, fCopulae
R (>= 2.6.0), methods, sn, MASS, robustbase, timeDate,
timeSeries, fBasics, fCopulae (>= 2100.76)
R (>= 2.6.0), methods, sn, MASS, robustbase, timeDate,
timeSeries, fBasics, fCopulae (>= 2100.77)
R (>= 2.4.0), methods, robustbase, MASS, fBasics, fRegression
R (>= 2.6.0), methods, sn, MASS, robustbase, timeDate, timeSeries, fBasics, fCopulae
R (>= 2.6.0), timeDate, timeSeries, fBasics, fCopulae (>=
2100.77)
R (>= 2.15.1), methods, MASS, timeDate, timeSeries, fBasics,
fCopulae, sn, robustbase, ecodist, energy, mvnormtest
R (>= 2.6.0), MASS, methods, timeDate, timeSeries (>= 2100.83)
R (>= 2.6.0), MASS, methods, timeDate, timeSeries (>= 2100.84)
R (>= 2.6.0), stats, MASS, methods, timeDate, timeSeries (>=
2100.84)
stats, MASS, methods, timeDate, timeSeries (>= 2100.84)
R (>= 1.9.0), methods, MASS, fEcofin, fCalendar
R (>= 2.2.1), methods, MASS, fEcofin, fCalendar
R (>= 2.6.0), MASS, methods, timeDate, timeSeries
R (>= 2.4.0), timeDate, timeSeries, fBasics
R (>= 2.4.0), methods, MASS, fEcofin, fUtilities
R (>= 2.4.0), methods, MASS, fUtilities, fEcofin
R (>= 2.6.0), fBasics, fOptions, fExoticOptions
R (>= 2.4.0), sn, adapt, methods, timeDate, timeSeries,
fBasics (>= 2100.77)
R (>= 2.4.0), sn, adapt, methods, timeDate, timeSeries,
fBasics (>= 2100.78)
R (>= 2.4.0), sn, methods, timeDate, timeSeries, fBasics (>=
2100.78)
R (>= 2.2.1), methods, fBasics, fCalendar, fSeries, fMultivar, fExtremes
R (>= 2.4.0), sn, adapt, methods, timeDate, timeSeries, fBasics
R (>= 2.4.0), sn, adapt, methods, timeDate, timeSeries,
fBasics
R (>= 2.15.1), timeDate, timeSeries, fBasics, fMultivar
R (>= 2.4.0), methods, timeDate, timeSeries, fBasics, fOptions
R (>= 2.4.0), methods, fBasics, fOptions
R (>= 2.15.1), timeDate, timeSeries, fBasics, fOptions
R (>= 2.15.0), mvtnorm, tmvtnorm, fCertificates, Matrix
R (>= 1.9.0), methods, fBasics, fCalendar, fSeries, fMultivar
R (>= 2.4.0), methods, timeDate, timeSeries, fBasics, fGarch,
fTrading
R (>= 1.9.0), methods, fEcofin, fBasics, fCalendar, fSeries, fMultivar
R (>= 2.2.1), methods, fCalendar, fBasics, fSeries, fMultivar
R (>= 2.4.0), methods, timeDate, timeSeries, fBasics, fGarch, fTrading
R (>= 2.4.0), timeDate, timeSeries, fBasics, fGarch, fTrading
R (>= 2.15.1), timeDate, timeSeries, fBasics, fGarch
R (>= 2.6.0), stats, graphics, methods, timeDate, timeSeries,
fBasics (>= 2100.77)
R (>= 2.6.0), stats, graphics, methods, timeDate, timeSeries,
fBasics (>= 2100.78)
R (>= 2.15.0), stats, graphics, methods, timeDate, timeSeries,
fBasics (>= 2100.78)
R (>= 2.6.0), stats, graphics, methods, timeDate, timeSeries, fBasics
R (>= 2.6.0), stats, graphics, methods, timeDate, timeSeries,
fBasics
R (>= 2.6.0), methods, timeDate, timeSeries
R (>= 2.13.0), methods, timeDate, timeSeries
R (>= 1.9.0),methods, mgcv, nnet, fBasics, fCalendar, fSeries,
R (>= 2.4.0), methods, sn, timeDate, timeSeries, fBasics
R (>= 1.9.0),methods, mgcv, nnet, mvtnorm, fEcofin, fCalendar, fBasics, fSeries
R (>= 2.2.1),methods, mgcv, nnet, mvtnorm, fEcofin, fCalendar, fBasics, fSeries
R (>= 2.4.0), methods, timeDate, timeSeries, fBasics, fGarch
R (>= 2.7.0), methods, MASS, timeDate, timeSeries (>= 290.81),
fBasics, fCopulae, fAssets, quadprog, Rglpk, Rsymphony,
robustbase
R (>= 2.7.0), methods, MASS, timeDate, timeSeries, fBasics,
fCopulae, fAssets (>= 2100.77), quadprog, Rglpk, Rsymphony,
robustbase
R (>= 2.7.0), methods, MASS, quadprog, robustbase, timeDate,
timeSeries, fBasics, fAssets (>= 2100.78), Rglpk
R (>= 2.8.0), methods, MASS, quadprog, robustbase, timeDate,
timeSeries, fBasics, fAssets (>= 2100.78), Rglpk
R (>= 2.8.0), methods, MASS, robustbase, timeDate, timeSeries,
fBasics, fAssets (>= 2100.78)
R (>= 1.9.0), methods, fBasics, fCalendar, fSeries, fMultivar, fExtremes
R (>= 1.9.0), methods, fEcofin, fCalendar, fBasics, fSeries, fMultivar, fExtremes
R (>= 2.2.1), methods, robustbase, MASS, fEcofin, fCalendar, fBasics, fSeries, fMultivar, fExtremes, fCopulae, quadprog, lpSolve
R (>= 2.4.0), quadprog, lpSolve, MASS, fAssets
R (>= 2.6.0), methods, MASS, timeDate, timeSeries, fBasics, fAssets, quadprog, Rglpk
R (>= 2.15.1), methods, timeDate, timeSeries, fBasics, fAssets
R (>= 2.15.1), timeDate, timeSeries, fBasics, fAssets
R (>= 2.4.0), methods, mgcv, nnet, polspline, timeDate,
timeSeries, fBasics, fTrading, fMultivar
R (>= 2.4.0), methods, mgcv, nnet, timeDate, timeSeries,
fBasics, fTrading, fMultivar
R (>= 2.2.0), methods, mgcv, nnet, polspline, fTrading, fMultivar
R (>= 2.4.0), methods, mgcv, nnet, polspline, fTrading, fMultivar
R (>= 2.4.0), methods, mgcv, nnet, polspline, fBasics, fTrading, fMultivar
R (>= 2.4.0), fBasics, fTrading, fMultivar, nnet, mgcv
R (>= 2.4.0), fBasics, fTrading, fMultivar, mgcv, nnet
R (>= 1.9.0), methods, mgcv, modreg, nnet
R (>= 1.9.0), fBasics, methods, mgcv, nnet
R (>= 1.9.0), methods, fBasics, fCalendar
R (>= 1.9.0), methods, mgcv, nnet, fCalendar, fBasics
R (>= 2.2.1), methods, mgcv, nnet, MASS, fEcofin, fCalendar, fBasics
R (>= 2.4.0), methods, robustbase, fCalendar
R (>= 2.4.0), robustbase, methods, fUtilities, fEcofin, fCalendar
R (>= 2.4.0), robustbase, methods, fUtilities, fEcofin,
fCalendar
R (>= 2.4.0), urca, methods, timeDate, timeSeries, fBasics
R (>= 2.2.0), RUnit, methods, MASS, spatial, akima, tcltk, zoo
R (>= 2.4.0), RUnit, methods, MASS, spatial, tcltk, zoo
fabletools (>= 0.3.1), ATAforecasting (>= 0.0.55)
fabletools (>= 0.3.1), ATAforecasting (>= 0.0.56)
Matrix, graphics, plotrix, datasets, FactoMineR
R (>= 2.14.0), plotrix, FactoMineR, Matrix
sensitivity, igraph, DiceKriging (>= 1.2)
sensitivity, igraph0, DiceKriging (>= 1.2)
sensitivity, igraph0, DiceKriging (>= 1.3)
sensitivity, igraph0, DiceKriging (>= 1.4)
sensitivity, igraph, DiceKriging (>= 1.4)
R (>= 3.5.0), naivebayes, fastAdaboost, gam, stats
R (>= 2.8.0), ChainLadder, ggplot2, plyr, reshape, tools
R (>= 2.7.0), ChainLadder, ggplot2, plyr, reshape, tools
R (>= 3.2.2), ggplot2, methods, stats, utils
R (>= 3.2.0), ggplot2, methods, stats, utils
R (>= 3.3), base, stats, graphics, grDevices, utils
R (>= 2.10.0), splines, zoo, Matrix, RCurl
R (>= 2.10.0), splines, Matrix, graphics
R (>= 3.5), splines, Matrix, fds, deSolve
R (>= 2.10),fda, splines, MASS, mgcv, e1071, pls
R (>= 2.10), fda, splines, MASS, mgcv, pls
R (>= 2.10), fda, splines, MASS, mgcv, rpart
R (>= 3.0.0), stats, grDevices, graphics, rgl
R (>= 3.5.0), stats, grDevices, graphics, geometry, rgl,
Matrix, plot3D, plot3Drgl
R (>= 3.5.0), stats, grDevices, graphics, rgl, Matrix, plot3D,
methods
R (>= 3.5.0), stats, grDevices, graphics, geometry, rgl,
Matrix, plot3D, plot3Drgl, methods
R (>= 3.5.0), stats, grDevices, graphics, geometry, rgl,
Matrix, plot3D, methods
R (>= 2.11.0), foreach, doMC, mvtnorm, matrixcalc, numDeriv
R (>= 2.11.0), foreach, mvtnorm, matrixcalc, numDeriv
R (>= 3.6.0), arules, FactoMineR, mclust, nnet, pls
R (>= 3.5), arules, FactoMineR, mclust, nnet, pls
R (>= 3.5.0), arules, FactoMineR, mclust, nnet, pls
R (>= 3.5.0), arules, arulesViz, FactoMineR
R (>= 2.6.0), stats, grDevices, graphics
R (>= 2.4.0), methods, filehash, DBI, RSQLite
R (>= 2.4.1), methods, filehash (>= 1.0), DBI, RSQLite
R (>= 2.9.0), methods, filehash (>= 1.0), DBI, RSQLite
R (>= 2.14.0), methods, filehash (>= 1.0), DBI, RSQLite
R (>= 2.4.1), methods, filehash (>= 0.9), DBI, RSQLite
R (>= 2.7.0),MASS, boot, bootstrap, lme4
R (>= 2.7.0),MASS, boot, bootstrap, lme4, numDeriv
R (>= 3.0.1), boot, stats, foreign, MASS
R (>= 3.2.0),MASS, boot, bootstrap, lme4
gWidgets, tcltk, tkrplot, RGtk2, gWidgetsRGtk2
gWidgets, tcltk, tkrplot, RGtk2, gWidgetsRGtk2,cairoDevice
gWidgets, tcltk, tkrplot, RGtk2, gWidgetsRGtk2, cairoDevice
R (>= 3.2.0), MASS, grDevices, survival, methods, npsurv
R (>= 3.2.0), MASS, grDevices, survival, methods
R (>= 3.5.0), MASS, grDevices, survival, methods
R (>= 2.14), lattice, igraph, MASS, Matrix
R (>= 2.15.0), lattice, MASS, Matrix, igraph
R(>= 3.4.2), stats, dplyr, tibble, magrittr
graphics, lattice, modeltools (>= 0.2-15)
graphics, grid, lattice, modeltools (>= 0.2-16)
R (>= 2.14.0), graphics, grid, lattice, modeltools (>= 0.2-16)
R (>= 2.14.0), graphics, grid, lattice, modeltools
R (>= 1.9.0), graphics, methods, stats, stats4
lattice, modeltools (>= 0.2-16), multcomp
methods, splines, survival, stats, matrixcalc, Epi
methods, splines, survival, stats, matrixcalc, Epi,
formula.tools
methods, survival, stats, matrixcalc, Epi, formula.tools
methods, foreach, e1071, someMTP, cherry
R (>= 2.15.1), methods, foreach, e1071, someMTP, cherry
R (>= 3.0), flowWorkspace, flowCore, vegan
flowWorkspace, flowCore, vegan, ggplot2, grDevices, stats,
utils, gridExtra, graphics, methods
R (>= 3.0.2), methods, params (>= 0.3), utils
R (>= 3.3), methods, params (>= 0.7), utils
R (>= 2.5.0), iterators(>= 1.0.0), codetools, utils
R (>= 2.0.0), graphics, stats, tseries, fracdiff
R (>= 2.0.0), graphics, stats, tseries, fracdiff, zoo
R (>= 2.0.0), graphics, stats, tseries, fracdiff, zoo, Rcpp
(>= 0.9.7), RcppArmadillo (>= 0.2.29)
R (>= 2.0.0), graphics, stats, parallel, tseries, fracdiff,
zoo, Rcpp (>= 0.9.7), RcppArmadillo (>= 0.2.29)
R (>= 2.14.0), graphics, stats, parallel, tseries, fracdiff,
zoo, Rcpp (>= 0.9.7), RcppArmadillo (>= 0.2.29)
R (>= 2.14.0), graphics, stats, parallel, tseries, fracdiff,
zoo, Rcpp (>= 0.9.10), RcppArmadillo (>= 0.2.35)
R (>= 2.14.0), graphics, stats, parallel, tseries, fracdiff,
zoo, Rcpp (>= 0.9.10), RcppArmadillo (>= 0.2.35), colorspace,
nnet, caret
R (>= 3.0.2), stats, graphics, zoo, timeDate
R (>= 2.9.0), operator.tools(>= 0.2.1), utils, methods
R (>= 2.9.0), operator.tools(>= 1.2.1), utils, methods
R (>= 3.0.0), operator.tools(>= 1.4.0), utils, methods
R (>= 1.9), MASS, cluster, mclust, flexmix
R (>= 2.0), MASS, cluster, mclust, flexmix
R (>= 2.0.0), graphics, stats, tseries, forecast, fma,
expsmooth
R (>= 2.0.0), graphics, stats, tseries, forecast, fma,
expsmooth, lmtest
R (>= 2.0.0), graphics, stats, forecast, fma, expsmooth,
lmtest, tseries
R (>= 2.0.0), forecast (>= 8.0), fma, expsmooth, ggplot2
R (>= 2.10), ggplot2, forecast (>= 8.0), fma, expsmooth
R (>= 2.10), ggplot2, forecast (>= 8.3), fma, expsmooth
emg (>= 1.0.5), numDeriv, methods, stats4
R (>= 2.5.1), splus2R (>= 1.0-1), ifultools (>= 1.0-2), sapa, wmtsa, akima, MASS, scatterplot3d
R (>= 2.4.1), splus2R, ifultools, sapa, wmtsa, akima, MASS, scatterplot3d
R (>= 2.8.0), futile.any, futile.logger, timeDate, zoo, xts,
quantmod
futile.any (>= 1.3.0), futile.logger (>= 1.3.0), timeDate,
quantmod
R (>= 3.2.0), methods, Matrix, numDeriv, survival, cmprsk
R (>= 3.4.0), methods, Matrix, survival, cmprsk
R (>= 3.5.0), methods, Matrix, survival, cmprsk
R (>= 2.10), survival, boot, MASS, survC1, nlme
R (>= 2.10), survival, boot, MASS, survC1
R (>= 2.10), survival, boot, MASS, survC1, doBy
R (>= 3.6.2), survival, boot, MASS, survC1, doBy
R (>= 2.10.0), survival, boot, MASS, survC1, doBy
R (>= 2.15.0), mvtnorm, stats, graphics, base
R (>= 2.15.0), mvtnorm, stats, graphics, base, matrixcalc,
utils
R (>= 2.15.0), mvtnorm, stats, graphics, base, fda, freqdom
R (>= 3.0), rmarkdown, knitr, DT, ggplot2
R (>= 2.8.1), classInt, colorspace, methods, rgl, sp
R (>= 3.0.0), caret, gsubfn, utils, parallel, multicore
R (>= 3.0.0), caret, gsubfn, utils, parallel
R (>= 3.1.0), caret, gsubfn, hmeasure, utils, parallel
R (>= 3.0.0), caret, gsubfn, hmeasure, utils, parallel
fda, parallel, funFEM,abind,ggplot2, R (>= 3.4.0)
fda, parallel, funFEM, abind, ggplot2, R (>= 3.4.0)
ggplot2, igraph, devtools, ggrepel, grDevices, R (>= 3.6)
R (>= 2.8.0), futile.options, futile.logger, futile.matrix,
futile.any
R (>= 2.8.0), futile.paradigm (>= 1.1.2), futile.options
R (>= 2.8.0), futile.paradigm (>= 1.2.0), futile.options
R (>= 2.8.0), futile.paradigm (>= 2.0.0), futile.options
R (>= 2.8.0), futile.paradigm (>= 2.0.0), futile.logger (>=
1.2.0), futile.any (>= 1.2.0), RMTstat, RUnit
futile.logger (>= 1.3.0), futile.any (>= 1.3.0), RMTstat
R (>= 2.3.0), graphics, stats, zoo, sandwich, strucchange
R (>= 2.10.0), graphics, stats, zoo, sandwich, strucchange
R (>= 2.8.0), graph, rJava (>= 0.8-3), methods, MASS, PolynomF
R (>= 2.8.0), rJava (>= 0.6-3), methods, MASS, PolynomF,
multcomp (>= 1.1), graph (>= 1.20), xtable, gtools (>= 2.5.0)
R (>= 2.8.0), rJava (>= 0.6-3), methods, MASS, PolynomF,
multcomp (>= 1.1), graph (>= 1.20), xtable, gtools (>= 2.5.0),
JavaGD, MCPAN
R (>= 2.8.0), rJava (>= 0.6-3), CommonJavaJars, methods, MASS,
PolynomF, multcomp (>= 1.1), graph (>= 1.20), xtable, gtools
(>= 2.5.0), JavaGD, MCPAN
R (>= 2.8.0), rJava (>= 0.6-3), CommonJavaJars, methods, MASS,
PolynomF, multcomp (>= 1.1), JavaGD, lattice
R (>= 2.8.0), rJava (>= 0.6-3), CommonJavaJars (>= 1.0.1),
methods, MASS, PolynomF, multcomp (>= 1.1), JavaGD, lattice
R (>= 2.8.0), rJava (>= 0.6-3), CommonJavaJars (>= 1.0.3),
methods, MASS, PolynomF, multcomp (>= 1.1), JavaGD, lattice
R (>= 2.1.0),methods,gRbase (>= 1.6-2),graph,RBGL
R (>= 2.1.0), MASS, dynamicGraph,methods
R (>= 2.10), MASS, graph, RBGL, igraph, methods
R (>= 2.10), MASS, graph, RBGL, igraph0, methods
R (>= 2.10), MASS, graph, RBGL, igraph, methods, Matrix, Rcpp,
RcppEigen
R (>= 2.1.0),methods,gRbase (>= 1.6-2),gRain,doBy
methods, memoise, RGtk2, gWidgets2(>= 1.0.7)
R (>= 2.12.0), methods, digest, memoise, tcltk(>= 2.7.0),
gWidgets2
R (>= 2.12.0), methods, digest, memoise, tcltk(>= 2.7.0),
gWidgets2(>= 1.0.7)
methods, grDevices, utils, graphics, RGtk2, gWidgets,
cairoDevice
methods, proto, filehash, digest, rjson, tcltk
R (>= 2.11.0), methods, proto, filehash, digest, rjson
methods, gWidgets, rJava, JGR, iplots, JavaGD
methods, gWidgets(>= 0.0.14), rJava, JGR, iplots, JavaGD
methods, gWidgets(>= 0.0.15), rJava, JGR, iplots, JavaGD
R (>= 2.5.0), methods, gWidgets(>= 0.0.15), rJava, JGR, iplots, JavaGD
methods, gWidgets(>= 0.0.41), tcltk(>= 2.7.0), digest
R (>= 2.9.0), splines, survival, methods, mboost (>= 2.0-0)
R (>= 2.10.0), splines, survival, methods, mboost (>= 2.0-0)
R (>= 2.10.0), splines, survival, methods, mboost (>= 2.0-12)
R (>= 2.10.0), mgcv, DAAG, MASS, randomForest, lattice,
latticeExtra, Ecdat, mlbench, rpart, KernSmooth
R (>= 2.15), Matrix, methods, graphics, stats
R (>= 2.15.0), graphics, stats, splines, utils, gamlss.dist,
gamlss.data, nlme
R (>= 2.15.0), graphics, stats, splines, utils, gamlss.data,
gamlss.dist, nlme
R (>= 2.15.0), graphics, stats, splines, utils, gamlss.data,
gamlss.dist (>= 4.3.1), nlme
R (>= 2.15.0), graphics, stats, splines, utils, grDevices,
gamlss.data, gamlss.dist (>= 4.3.1), nlme, parallel
R (>= 3.2.0), graphics, stats, splines, utils, grDevices,
gamlss.data, gamlss.dist (>= 4.3.1), nlme, parallel
R (>= 3.2.0), graphics, stats, splines, utils, grDevices,
gamlss.data (>= 5.0-0), gamlss.dist (>= 4.3.1), nlme, parallel
R (>= 3.3.0), graphics, stats, splines, utils, grDevices,
gamlss.data (>= 5.0-0), gamlss.dist (>= 4.3.1), nlme, parallel
R (>= 2.4.0), gamlss, mgcv, nnet, gamlss.util
R (>= 2.4.0), gamlss, mgcv, nnet, gamlss.util, gamlss.nl
R (>= 2.4.0), gamlss, mgcv, nnet, gamlss.util, gamlss.nl,
lattice
R (>= 2.4.0), gamlss (>= 2.4.0), mgcv, nnet, gamlss.nl,
lattice
R (>= 2.15.0), gamlss (>= 2.4.0), mgcv, nnet, gamlss.nl,
lattice
R (>= 2.15.0), gamlss.dist, gamlss (>= 2.4.0), mgcv, nnet,
rpart
R (>= 2.15.0), gamlss.dist, gamlss (>= 2.4.0), mgcv, nnet,
rpart, graphics, stats, utils, grDevices, methods
R (>= 2.2.1), gamlss, gamlss.dist, survival
R (>= 2.2.1), gamlss.dist, gamlss, survival
R (>= 2.2.1), gamlss.dist, gamlss, survival, methods
R (>= 2.2.1), gamlss.dist, gamlss (>= 5.0-0), stats
R (>= 2.4.0), rpanel, gamlss, gamlss.tr, gamlss.util
R (>= 2.4.0), rpanel (>= 1.1-1), gamlss, gamlss.tr,
gamlss.util
R (>= 2.4.0), rpanel (>= 1.1-1), gamlss.dist, gamlss.tr, tcltk
R (>= 2.4.0), rpanel (>= 1.1-1), gamlss.dist, gamlss.tr,
tcltk, graphics, stats, grDevices
R (>= 2.15.0), MASS, graphics, stats, methods
R (>= 2.15.0), MASS, graphics, stats, methods, grDevices
R (>= 3.5.0), MASS, graphics, stats, methods, grDevices
R (>= 2.2.1), gamlss, foreach, doParallel, methods
R (>= 3.5.0), gamlss.dist, gamlss (>= 4.3.3), ggplot2,
gamlss.foreach
R (>= 2.15.0), gamlss (>= 2.4.0), glmnet, lars, Matrix
R (>= 2.2.1), gamlss.dist, gamlss, nnet, stats, graphics
R (>= 2.15.0), gamlss.dist, gamlss (>= 4.2-7), spam, mgcv
R (>= 2.15.0), gamlss.dist, gamlss (>= 4.2-7), gamlss.add,
spam, mgcv
R (>= 2.2.1), gamlss.dist, gamlss (>= 4.2-7), methods
R (>= 2.2.1), gamlss.dist, gamlss (>= 5.0-0), methods
R (>= 2.4.0), gamlss, colorspace, Matrix
R (>= 2.4.0), gamlss, colorspace, Matrix, MASS
R (>= 2.15.0), gamlss (>= 2.4.0), colorspace, Matrix, MASS,
rgenoud, zoo, gamlss.add (>= 2.4.0)
R (>= 2.15.0), gamlss (>= 2.4.0), colorspace, Matrix, MASS,
rgenoud, zoo, gamlss.add (>= 2.15.0), spam
R (>= 2.15.0), gamlss.dist, gamlss (>= 4.3.3), zoo, stats,
methods, graphics, grDevices
R (>= 2.10), Rcpp, RcppParallel, methods, WhopGenome,
LDheatmap
R (>= 2.5.0), survival, lattice, splines
R (>= 2.12.0), survival, lattice, splines
R (>= 2.9.0), survival, lattice, splines
R (>= 2.9.0), survival, lattice, splines, parallel
graphics, methods, flexclust (>= 1.0-0), Rgraphviz
R (>= 2.10), graphics, methods, flexclust (>= 1.0-0),
Rgraphviz
R (>= 2.11.1), RSQLite, plyr, reshape, lattice
R (>= 2.10), nlme, sandwich, sn, geoR, sp
R (>= 2.10), nlme, sandwich, geoR, betareg, Formula
R (>= 3.3.0), Rcpp, RcppProgress, jsonlite, ncdf4
R(>= 3.2.0), DBI, leaflet, shiny, ggplot2, odbc
R(>= 4.0.0), leaflet, shiny, ggplot2, RSQLite
R (>= 2.10.0), oro.nifti, gsl, movMF, gridExtra, rgl,
colorspace, geometry
R (>= 2.15.0), oro.nifti, gsl, movMF, gridExtra, rgl,
colorspace, geometry
R (>= 2.8.0), raster (>= 1.7-21), igraph, Matrix, methods, sp
R (>= 2.8.0), raster (>= 1.9-19), igraph0, Matrix, methods, sp
R (>= 2.8.0), raster (>= 1.9-19), igraph, Matrix, methods, sp
R (>= 2.15.2), Rcpp (>= 0.10.4), raster, reshape2, vegan, plyr
R (>= 2.15.2), raster, foreach, doParallel, parallel
R, ape (>= 1.9-4), MASS, gtools, mvtnorm, msm
ape (>= 1.9-4), MASS, gtools, mvtnorm, msm
ape (>= 1.9-4), MASS, mvtnorm, msm, ouch
ape (>= 3.0-6), MASS, mvtnorm, msm, subplex, deSolve (>= 1.7),
colorspace, digest, Rcpp (>= 0.9.0), coda, R (>= 2.15.0), ncbit
R (>= 2.10.0), kernlab (>= 0.9), biomaRt (>= 1.12.1), KEGGSOAP
(>= 1.12.0), RBGL, AnnotationDbi,org.Dm.eg.db, keggorthology
(>= 2.0)
survival, cluster, class, gplots, parallel, snow
R (>= 3.0.0), survival, cluster, class, parallel
survcomp, amap, mclust, gplots, R (>= 2.5.0)
R (>= 3.1.1),plspm, quantreg,mice,diagram, methods
R (>= 3.1.2), stats, graphics, grDevices, utils, diagram,
methods, mice, plspm, quantreg,
R (>= 3.1.2), stats, graphics, grDevices, utils, diagram,
methods, mice, quantreg
R (>= 3.1.2), stats, graphics, grDevices, utils, diagram,
methods, quantreg
R (>= 3.5.0), stats, cSEM, diagram, methods, graphics,
grDevices
R (>= 3.0), mvmesh, geometry, SphericalCubature, rgl, utils,
grDevices, graphics
R (>= 3.0), mvmesh, geometry, SphericalCubature (>= 1.5), rgl,
utils, grDevices, graphics
R (>= 1.0), splancs, scatterplot3d, MASS
R (>= 1.3.0), splancs, scatterplot3d, MASS
R (>= 2.10), stats, sp, methods, MASS, RandomFields, splancs
R (>= 2.10), stats, sp, methods, MASS, tcltk
R (>= 2.13), RPMG, RFOC, MASS, cluster, stats
R(>= 2.14.0), parallel, snowfall, sp(>= 0.9-60), stats
R(>= 2.14.0), graphics, parallel, snowfall, sp(>= 0.9-60),
stats, utils
R(>= 2.15-0), spacom, classInt, rgeos, rgdal, sp, maptools,
geosphere
R(>= 2.15-0), rgeos, classInt, sp, maptools, geosphere
R (>= 2.15.0), geoR, gstat, genalg, limSolve, MASS
R (>= 2.15.0), geoR, gstat, genalg, limSolve, MASS, plyr,
TeachingDemos, gsl
R (>= 2.15.0), gstat, genalg, MASS, sp, minqa
R (>= 2.15.0), FD, StatMatch, fields, sp
Matrix, raster, sp, OpenStreetMap, R (>= 3.0.0)
methods, Matrix, raster, sp, R (>= 3.0.0)
R (>= 3.0.2), ggplot2, grid, Matrix, lpSolve, reshape2
R (>= 3.1.0), ggplot2, randomForestSRC, reshape2, survival,
dplyr
R (>= 3.5.0), randomForestSRC (>= 1.5.5), randomForest
R (>= 3.1), ggplot2 (>= 3.3), ggstance (>= 0.3.4), scales,
ggridges
R (>= 2.10), RgoogleMaps, ReadImages, ggplot2, plyr, reshape2
R (>= 2.10), RgoogleMaps, ReadImages, ggplot2 (>= 0.9.0),
scales, plyr, reshape2, grid, proto
R (>= 2.10), RgoogleMaps, ReadImages, ggplot2 (>= 0.9.0),
scales, plyr, reshape2, grid, proto, rjson
R (>= 2.3), grid, reshape (>= 0.6.3), RColorBrewer
R (>= 2.3), grid, reshape (>= 0.7.4), RColorBrewer
R (>= 2.4), grid, reshape (>= 0.7.3), proto, splines, MASS, RColorBrewer
R (>= 2.4), grid, reshape (>= 0.8.0), proto, splines, MASS, RColorBrewer, colorspace
R (>= 2.4), grid, reshape (>= 0.8.0), proto, splines, MASS,
RColorBrewer, colorspace
R (>= 2.6), grid, reshape (>= 0.8.0), proto, splines, MASS,
RColorBrewer, colorspace
grid, reshape (>= 0.8.0), proto, RColorBrewer,
splines, MASS, R (>= 2.7), plyr
grid, reshape (>= 0.8.0), proto, RColorBrewer,
splines, MASS, R (>= 2.7), plyr (>= 0.1.2)
R (>= 3.1.2), seasonal, ggplot2 (>= 2.0.0), stats, zoo
R (>= 3.3.0), datasets, grDevices, stats
R (>= 3.5.0), ggplot2, survey, hexbin, dplyr
R(>= 2.4), methods, numDeriv, graphics, gplots
R(>= 2.4), methods, numDeriv, graphics, stats, gplots
R(>= 2.5), methods, numDeriv, graphics, stats, gplots
R(>= 2.7), methods, numDeriv, graphics, stats, gplots
R(>= 2.7), methods, numDeriv, graphics, stats, MASS
R (>= 2.10), methods, raster, sp, udunits2
R (>= 3.5.0), stats, MASS, parallel, mlogit, dfidx, survey
R (>= 3.1.1), trust, mvtnorm, Matrix, digest
R (>= 3.2.0), trust, mvtnorm, Matrix, parallel, doParallel
R (>= 3.5), trust, mvtnorm, Matrix, parallel, doParallel
R (>= 4.0), trust, mvtnorm, Matrix, parallel, doParallel
R (>= 2.10.0), smoothSurv, coda, mvtnorm
R (>= 2.10), MASS, nlme, abind, spdep, RandomFields, raster
stats, MASS, glmnet, ncvreg, brglm, parallel
R (>= 3.5.0), spatstat.random (>= 2.1.0), spatstat.explore (>=
3.0), spatstat.geom (>= 2.3.2)
R (>= 2.10.1), stats, survival, splines, Icens
R(>= 2.1.0), DBI, RMySQL, foreach, methods, digest, shiny
R (>= 2.0.0), sandwich, tseries, mvtnorm
grid, epitools, mimR, CoCo, CoCoObjects, CoCoRaw, CoCoCore,
gtools
R (>= 2.7.0), grid, epitools, CoCo, CoCoObjects, CoCoRaw,
CoCoCore, gtools
R (>= 2.7.0), grid, epitools, CoCo, CoCoObjects, CoCoRaw, CoCoCore, gtools
R (>= 1.9.0), copula, foreach, parallel, doParallel
R (>= 1.9.0), copula (>= 0.999-15), foreach, parallel,
doParallel, R.utils
R (>= 1.9.0), copula (>= 0.999-15), foreach, parallel, doSNOW,
R.utils
R (>= 3.3.1), ggplot2, grDevices, scales, stats
R (>= 2.10), stats, gPdtest, mvShapiroTest
R (>= 2.7.0), methods, stats, graphics, fGarch, fastICA
R (>= 2.10.0), methods, stats, graphics, fGarch, fastICA
R (>= 2.11.0), RJSONIO (>= 0.3), methods, utils
barcode, grid, lattice, vcd, MASS, colorspace
R (>= 2.10), gtools, gdata, stats, caTools, grid, KernSmooth
R (>= 3.0), gtools, gdata, stats, caTools, grid, KernSmooth,
MASS, datasets
R (>= 2.10), gtools, gdata, stats, caTools, grid, KernSmooth,
MASS, datasets
R (>= 1.9.0), gtools, gdata, stats, caTools, grid
R (>= 3.0.0), methods, grDevices, graphics, grid, XML
R (>= 2.5.0), MASS, Rcmdr, DAAG, tcltk, car, rgl, mgcv
R (>= 2.13.0), ggplot2 (>= 0.8.9), RColorBrewer, gridExtra,
MASS
R (>= 2.10), methods, graph, AnnotationDbi, org.Hs.eg.db
R (>= 3.0.2), ape, sp, methods, snowfall, rgl
R (>= 1.9.0), gdata, gtools, gmodels, gplots
R (>= 2.15.0), grid, gridGraphviz, gridSVG
R (>= 2.15.0), methods, grid, RJSONIO, XML
R (>= 2.10.1), grDevices, graphics, stats, utils, MASS, rgl,
misc3d
R (>= 3.2.0), grDevices, graphics, stats, utils, MASS
R (>= 3.0.0), ggplot2, xtable, stringr, RUnit, plyr
R (>= 3.0.2), Hmisc, mvtnorm, MCMCpack, graphics
R (>= 2.10), CompQuadForm, e1071, gee, geepack, Matrix
R (>= 2.10.0), Matrix, MASS, splines, mgcv
R (>= 3.2.3), ergm, ggplot2, shiny, shinydashboard
R (>= 3.2.3), ergm, ggplot2, magrittr, shiny, shinydashboard
R (>= 2.13.0), RCurl, rjson, statmod, tools, methods, utils
R (>= 2.13.0), RCurl, rjson, statmod, survival, stats, tools,
utils, methods
R (>= 2.13.0), statmod, survival, stats, graphics, utils,
methods
R (>= 3.5.0), methods, stats, graphics, arsenal
R (>= 2.14), glmnet, foreach, MASS, iterators
R (>= 3.0), glmnet, foreach, MASS, iterators
R (>= 3.0), glmnet, foreach, MASS, iterators, Matrix
R (>= 2.15), locfit, ash, ks, KernSmooth
R (>= 3.1.1), stats, graphics, grDevices
Biobase, Heatplus, grDevices, stats, graphics
highlight, sinartra, digest, parser, rjson, tools, stringr (>=
0.4), evaluate, RCurl, memoise
R (>= 3.0.1), rjson, RCurl, maptools, utils
ergm, latentnet, mcgibbsit, network, sna
R (>= 2.0.1), methods, stats, grid, lattice
R (>= 2.10), utils, Matrix, MASS, hglm.data
R (>= 3.0), utils, Matrix, MASS, hglm.data
R (>= 3.2.0), grDevices, graphics, methods, stats, utils,
surveillance (>= 1.14.0)
R (>= 3.2.0), MASS, Matrix, locfit, lbfgs
truncnorm, MASS, mvtnorm, Matrix, coda, spsurvey, MCMCpack,
ggplot2, xtable, mc2d
truncnorm, MASS, mvtnorm, Matrix, coda, spsurvey, MCMCpack,
xtable, mc2d
R (>= 2.5.1), Matrix , Iso(>= 0.0-5), splines, fda, MASS
ape, deSolve, GenSA, subplex, data.table
R (>= 2.9.0), methods, rJava, tools, XML
R (>= 3.5.0), stats, utils, MplusAutomation
R (>= 3.5.0), stats, utils, MplusAutomation, mvtnorm
R (>= 2.11.0), cluster, Biobase, methods
R (>= 2.10), Rgraphviz, functional, plotrix, Hmisc
R (>= 2.10.0), sp, raster, rgdal, rootSolve, signal, methods
R (>= 2.10.0), raster, rgdal, rootSolve, signal, methods,
caret
R (>= 3.3.1), raster (>= 2.5-8), rgdal (>= 1.1-10), rootSolve,
signal, methods, caret
R (>= 3.3.1), raster (>= 2.5-8), rgdal (>= 1.1-10), signal,
methods, caret, Boruta
R (>= 3.6.0), methods, Matrix, numDeriv, boot, mvtnorm
R (>= 3.0.2), forecast (>= 5.0), SparseM, Matrix
R (>= 3.0.2), forecast (>= 5.0), SparseM, Matrix, matrixcalc
glmnet, glasso, igraph, MASS, Matrix, lattice,
R (>= 2.10), Matrix, lattice, igraph, MASS
R (>= 3.0.0), Matrix, lattice, igraph, MASS
magick, cowplot, ggplot2, dplyr, R (>= 2.10)
R (>= 2.10.0), hwriter, TeachingDemos, RUnit
R (>= 2.5.0), RGtk2, plotAndPlayGTK (>= 0.8.23), lattice (>= 0.16), maps, maptools, akima
R (>= 3.00), magicaxis, MASS, rgl, LaplacesDemon
R (>= 2.10), methods, magrittr, cubature
methods, magrittr, cubature, R (>= 3.5.0)
R (>= 2.11), methods, utils, lattice, grid
R (>= 2.11), methods, utils, lattice, grid, mvtnorm
R (>= 2.15), methods, utils, lattice, grid, mvtnorm
R (>= 2.15), methods, utils, lattice, grid, ggplot2 (>=
0.9.2), mvtnorm
R (>= 2.7.0), adapt, methods, aylmer, abind, mvtnorm
R (>= 2.7.0), methods, aylmer, abind, mvtnorm
R (>= 2.7.0), methods, aylmer, abind, mvtnorm, cubature
Rcpp, rgl, methods, raster, maps, R (>= 3.0.0)
R (>= 2.15.0), lattice, caTools, gdata, gtools, gplots,
parallel
R (>= 2.10), ROCR, parallel, doParallel, foreach
R (>= 3.1.1), lpSolve, MASS, car, lsmeans, multcompView
R (>= 3.1.1), lpSolve, MASS, car, emmeans, multcompView
R (>= 3.3.1), methods, stats, tools, graphics, utils
R (>= 2.11.0), fields, deldir, rgeos, sp, spdep
R (>= 2.15.1), methods, RODBC, MASS, Matrix, arules
R (>= 2.15.1), methods, RODBC, Matrix, arules
R(>= 2.6.1), quadprog, mvtnorm, boot, kappalab
R(>= 2.5.0), quadprog, mvtnorm, boot, kappalab
corpcor, ggplot2, dummies, animation, ca
R (>= 2.10), ggplot2, animation, dummies
R (>= 3.4.0), survival, foreach, doParallel
R (>= 3.0.0), tcltk, data.table (>= 1.9.4), stats, utils,
tools
R (>= 2.10), ggplot2, dplyr, grDevices, stringr, graphics,
stats
R (>= 3.0.3), demography, rainbow, forecast, date
R (>= 4.0), SingleCellExperiment, methods
R (>= 3.3.0), Iso, stats, truncnorm, imputeLCMD
R (>= 3.3.0), Iso, stats, truncnorm, norm
R (>= 3.3.0), Iso, stats, truncnorm, norm, missForest, missMDA
R (>= 2.10), tmvtnorm, norm, pcaMethods, impute
quadprog, emplik, mvtnorm, survival, boot
R (>= 2.10.0), stats, graphics, grDevices
R (>= 2.1.0), stats, graphics, grDevices
R (>= 3.3), INLA, sp, stats, methods, ggplot2,
R (>= 3.3), sp, stats, methods, ggplot2,
ggplot2, methods, R (>= 3.5), sp (>= 1.4-2), stats
ggplot2, methods, R (>= 3.5), sp (>= 1.4-5), stats
R (>= 2.13.0), deSolve, nlme, lattice, compiler
R (>= 3.5), inlabru (>= 2.3.1), ggplot2, sp (>= 1.4-5), stats,
PointedSDMs, methods
R (>= 2.5.0), sp (>= 0.9-0), gstat (>= 0.9-36), rgdal (>=
0.5.2), akima, automap, mvtnorm, MASS, evd, lattice
R (>= 2.5.0), sp (>= 0.9-0), gstat (>= 0.9-36), akima,
automap, mvtnorm, MASS, evd, lattice
R (>= 2.14.0), sp (>= 0.9-0), gstat (>= 0.9-36), akima,
automap, mvtnorm, MASS, evd, lattice
R (>= 2.14.0), sp (>= 0.9-0), gstat (>= 0.9-36), automap,
mvtnorm, MASS, evd, lattice
R (>= 2.10), mclust, mixOmics, randomForest
R (>= 3.4.0), colorSpec, CircStats, plotrix
R (>= 2.2.1), stats, survival, perm, Icens, MLEcens
R (>= 2.2.1), stats, survival, perm (>= 1.0), Icens, MLEcens
shiny, ggplot2, dplyr, tidyr, tibble, R (>= 2.10)
R (>= 3.4.0), ggplot2, plot3D, lpSolve, utils
R (>= 2.7.0), AlgDesign, copula, evd, triangle
R (>= 3.5), AlgDesign, copula, evd, triangle, kolmim
rpart (>= 3.1-8), MASS, mlbench, survival, nnet, class
R (>= 2.10), rpart (>= 3.1-8), MASS, mlbench, survival, nnet,
class
R (>= 2.10), rpart (>= 3.1-8), MASS, mlbench, survival, nnet,
class, prodlim
R (>= 2.10), rpart (>= 3.1-8), MASS, survival, nnet, class,
prodlim
R (>= 2.0.1), boot, geepack, MASS, nlme, nnet, survival
R (>= 2.0.0), boot, geepack, MASS, nlme, nnet, survey,
survival
R (>= 2.0.0), boot, geepack, MASS, nlme, nnet, survival
R (>= 2.0.0), lattice, methods, stats, moments
R (>= 3.0.0), stats, lattice, moments, methods
R (>= 3.0.1), nlme, mvtnorm, nnet, numDeriv,matrixcalc
vegan, cluster, future, future.apply, proxy, methods
vegan, cluster, future, future.apply, progressr, methods
graphics, grDevices, stats, utils, coneproj, Matrix
partitions, stats, VGAM, MASS, ape, apTreeshape, geiger, laser
partitions, stats, VGAM, MASS, ape, apTreeshape, geiger,
gtools
quadprog, randtoolbox, parallel, R (>= 2.15)
dplyr, ggplot2, ggfortify, grid, R (>= 3.5.0)
dplyr, ggplot2, R (>= 3.5.0), compositions, grid
R (>= 2.13.0), graphics, stats, grDevices
R (>= 2.5.0), stats4, rgenoud, odesolve, reshape, sciplot
R (>= 2.9.2), stats4, rgenoud, odesolve, reshape, sciplot
R (>= 2.12.0), stats4, rgenoud, deSolve, reshape, sciplot
R (>= 2.12.0), stats4, rgenoud, deSolve, reshape, sciplot,
png, grid
methods, foreach, phyclust (>= 0.1-14), ape, Rcpp
R (>= 2.13.0), nlme, MASS, boot, survival, lattice, statmod
R (>= 2.13.0), nlme, MASS, boot, survival, lattice, statmod,
gdata
R(>= 2.0.1), methods, quadprog, kernlab, lpSolve
R(>= 2.1.0), methods, lpSolve, quadprog, kernlab
R (>= 2.14.0), methods, survival, Formula, grid, parallel,
locfit
R (>= 3.0.0), methods, graphics, survival, Formula, coin
R (>= 3.0.0), mvtnorm, snowfall, corpcor
RColorBrewer, stats, utils, graphics, roll, foreach,
doParallel
R(>= 2.11.0), methods, stats, graphics, ltm
Rcpp (>= 0.10.5), methods, testthat, nloptr
Rcpp (>= 0.10.5), methods, testthat, nloptr, lattice
survival, methods, nlme, lattice, R (>= 2.0.0)
methods, survival, nlme, lattice, R (>= 2.0.0)
methods, survival, nlme, lattice, R (>= 2.8.0)
R (>= 2.9.0), xtable, psychometric, polycor, methods,
graphics, tools
R (>= 2.13.1), compiler, rootSolve, emplik, Rcpp
R (>= 2.13.1), compiler, rootSolve, emplik
R (>= 3.0), knitr (>= 1.6), bibtex, RefManageR
R(>= 2.10.0), methods, ggplot2, reshape, plyr, grid, MASS,
coda, emdbook, tables, akima, LaF, RCurl
R(>= 2.15.1), methods, ggplot2, reshape, plyr, grid, MASS,
coda, emdbook, tables, akima, LaF, RCurl
R(>= 2.15.1), methods, ggplot2, reshape, plyr, grid, MASS,
coda, emdbook, tables, akima, RCurl, ellipse
R(>= 2.15.1), methods, ggplot2, reshape, plyr, grid, MASS,
coda, emdbook, tables, RCurl, ellipse
R(>= 2.15.1), methods, ggplot2, reshape, plyr, grid, MASS,
coda, emdbook, tables, akima, LaF, RCurl, ellipse
R (>= 3.5.0), pks (>= 0.4-0), MASS, stringr, sets, relations
R (>= 2.10), MASS, methods, dplyr, dbscan, stats, GSE
spatstat (>= 2.0-0), spatstat.geom, spatstat.linnet,
spatstat.core
spatstat (>= 2.0-0), spatstat.core (>= 2.3-0), spatstat.geom,
spatstat.linnet
R (>= 2.4.0), methods, lattice, Matrix, coda, lme4, zipfR, cluster, e1071, Design, Hmisc, MASS, rpart
methods, R(>= 2.5.1), lattice, zipfR, lme4, coda, Matrix
R(>= 2.7.0), methods, lattice, zipfR, Matrix, lme4 (>= 0.99875-9), coda
R(>= 2.7.1), methods, lattice, zipfR, Matrix, lme4 (>= 0.999375-9)
R(>= 2.7.1), methods, lattice, zipfR, Matrix, lme4 (>=
0.999375-9)
network, locfit, mvtnorm, mclust, shapes, KernSmooth
network, shapes, abind, tools, mvtnorm, coda
network, shapes, abind, tools, mvtnorm, coda, sna
statnet.common, network, abind, tools, mvtnorm, coda, sna
statnet.common, network, ergm (>= 3.1.2)
statnet.common, network, ergm (>= 3.2.0)
R (>= 2.8.0), statnet.common, network, ergm (>= 3.2.0)
R (>= 3.5.0), spatstat (>= 2.0-0), spatstat.geom
lattice (>= 0.16-3), latticeExtra (>= 0.5-4), vcd
R (>= 2.14), lava (>= 1.1), mvtnorm, survival
lava (>= 1.5), mets (>= 1.2.2), mvtnorm, survival
methods, R(>= 2.14.0), MASS, boot, mnormt, quadprog
methods, R(>= 2.14.0), MASS, boot, mnormt, pbivnorm, quadprog
methods, R(>= 2.14.0), MASS, boot, mvtnorm, quadprog
R (>= 2.6.0), grDevices, stats, mvtnorm, VGAM
R (>= 2.6.0), grDevices, stats, mvtnorm, VGAM, Kendall, Hmisc
R (>= 2.6.0), Hmisc, Kendall, mvtnorm, VGAM
R (>= 3.1.2), MASS, alabama, plotrix, ca
R (>= 3.1.0), MASS, alabama, plotrix, scatterplot3d, rgl
R (>= 2.14.0), survival (>= 2.37-2), parallel, mvtnorm
R (>= 3.5.0), survival (>= 2.37-2), parallel, mvtnorm,
randtoolbox
R (>= 3.5.0), survival (>= 2.37-2), parallel, mvtnorm,
randtoolbox, marqLevAlg (> 2.0)
R (>= 3.1.0), RcmdrPlugin.epack, ggplot2
R (>= 2.10), lattice, lmom, lmomRFA, latticeExtra
R (>= 2.2.0), spatstat, sp, RandomFields, iterators, ncdf,
methods, tcltk, rgl, rpanel, fields, rgdal, maptools
R (>= 2.2.0), spatstat, sp, RandomFields, iterators, ncdf,
methods, tcltk, rgl, rpanel, fields, rgdal, maptools, Matrix
R (>= 2.2.0), spatstat, sp, RandomFields, iterators, ncdf,
methods, tcltk, rgl, rpanel, fields, rgdal, maptools, Matrix,
gpclib
R (>= 2.2.0), spatstat, sp, RandomFields, iterators, ncdf,
methods, tcltk, rgl, rpanel, fields, maptools, Matrix, gpclib,
raster
R (>= 2.2.0), spatstat, sp, RandomFields, iterators, ncdf,
methods, tcltk, rgl, rpanel, fields, maptools, Matrix, raster
R (>= 3.0.1), spatstat, sp, RandomFields, iterators, ncdf,
methods, tcltk, rgl, rpanel (>= 1.1-2), fields, maptools,
Matrix, raster, rgeos, nlme
R (>= 2.10), gtools, gdata, tools, DEoptim
R (>= 2.10), DEoptim, ggplot2, gtools, rtf
stats, nloptr, broom, tmg, mvtnorm, purrr
genefilter, Biobase, nnet, stats, methods
genefilter, Biobase, progress, stats, methods
R (>= 3.5.0), ggplot2, ggrepel, ggforce, tidyverse, dplyr
methods, R(>= 1.9.0), lattice, stats4, Matrix(>= 0.8-6)
methods, R(>= 2.0.0), Matrix(>= 0.8-18), latticeExtra
methods, R(>= 2.0.1), Matrix(>= 0.8-21), latticeExtra
methods, R(>= 2.0.0), Matrix(>= 0.8-23), latticeExtra
methods, R(>= 1.9.0), lattice, Matrix(>= 0.8-8)
methods, R(>= 1.9.0), lattice, Matrix(>= 0.8-9)
methods, R(>= 1.9.0), Matrix(>= 0.8-12), graphics, stats
methods, R(>= 1.9.1), Matrix(>= 0.8-14), graphics, stats
methods, R(>= 2.0.0), Matrix(>= 0.9-1), latticeExtra
methods, R(>= 2.0.0), Matrix(>= 0.95-1), latticeExtra
methods, R(>= 2.0.0), Matrix(>= 0.95-5), lattice, latticeExtra
methods, R(>= 2.0.1), Matrix(>= 0.95-5), lattice, latticeExtra
methods, R(>= 2.1.0), Matrix(>= 0.95-6), lattice, latticeExtra
R (>= 2.14.0), lattice, Matrix (>= 1.0), methods, stats
R (>= 2.14.0), lattice, Matrix (>= 1.1), methods, stats
R (>= 3.0.0), Matrix, stats, methods, lme4 (>= 1.0)
R (>= 2.10), stats4, nlme, spatstat, grDevices, graphics,
stats
R (>= 2.10), stats4, nlme, spatstat, grDevices, graphics,
stats, magic
R (>= 1.8.0), igraph, MASS, vegan, Matrix
R (>= 2.10.0), base, methods, utils, grDevices, graphics,
stats
R (>= 2.15.0), base, methods, utils, grDevices, graphics,
stats
R (>= 2.10), nlme, ggplot2, rpart, formula.tools, MASS
R (>= 3.0.0), Matrix, lme4 (>= 1.0), nlme, methods
R (>= 3.0.0), Matrix, lme4, methods, nlme
R (>= 3.4.0), tcltk, methods, loon (> 1.2.3), ggplot2
R (>= 3.4.0), tcltk, methods, loon (>= 1.3.2), ggplot2,
ggmulti
R (>= 3.4.0), tcltk, methods, loon (>= 1.3.2), ggplot2
R (>= 3.4.0), loon (>= 1.3.0), tcltk, methods, shiny
R (>= 3.4.0), loon (>= 1.3.7), tcltk, methods, shiny
R (>= 3.4.0), tcltk, loon (> 1.3.1), tourr, methods,
R (>= 2.7.0), MASS, msm, mvtnorm, polycor, ltm, Hmisc, Design
R (>= 2.7.0), MASS, msm, mvtnorm, polycor, sfsmisc, ltm,
Hmisc, Design
R (>= 2.7.0), MASS, msm, mvtnorm, polycor, sfsmisc, ltm,
Hmisc, rms
stats, data.table, FactoMineR, rARPACK, svd
stats, data.table, rARPACK, svd, R (>= 2.10)
R (>= 2.9.2), methods, rjags (>= 1.0.3-11), filehash,
logspline, utils
R (>= 2.11.1), methods, rjags (>= 2.1.0-5), filehash,
logspline, utils
R (>= 2.13.1), methods, rjags (>= 3-3), filehash, logspline,
utils
R (>= 2.13.1), methods, rjags (>= 3-3), logspline, utils
R(>= 2.3.0), MASS, msm, mvtnorm, polycor
R (>= 2.3.0), MASS, msm, mvtnorm, polycor
R (>= 2.5.0), MASS, msm, mvtnorm, polycor
R (>= 2.9.0), MASS, msm, mvtnorm, polycor
R (>= 2.11.0), MASS, msm, mvtnorm, polycor
R (>= 2.13.0), MASS, msm, mvtnorm, polycor
R (>= 2.14.0), MASS, msm, mvtnorm, polycor
R (>= 2.10), mvtnorm, fields, gstat, snow, spam, sp,
spacetime, zoo, xts
methods, timechange (>= 0.1.1), R (>= 3.2)
R (>= 3.1.1), MASS, ergm, network, ellipse
R (>= 3.1.1), parallel, doParallel, foreach
R (>= 3.5.0), stats, mvtnorm, ellipse, mvmeta, metafor
R (>= 2.13), MASS, plotrix, sm, mapproj, celestial
R (>= 3.3.3), MCMCpack, combinat, igraph
R (>= 3.3), MCMCpack, combinat, igraph, mclust
R (>= 2.10.1), survey, lattice, maptools
R (>= 2.10), foreign (>= 0.8), sp (>= 0.9-47), methods, grid,
lattice, stats
R (>= 2.10), foreign (>= 0.8), sp (>= 1.0-11), methods, grid,
lattice, stats
R (>= 1.0), mva, cluster, tree, rpart, combinat
R (>= 1.0), mva, cluster, rpart, combinat
R (>= 2.01), shape, deSolve, rootSolve, scatterplot3d, seacarb
R (>= 2.01), marelac, deSolve, rootSolve, scatterplot3d
R (>= 2.12.0), optimx, coda, truncnorm, Matrix, Rcpp (>=
0.9.13), ggplot2
R (>= 3.1.0), methods, yaml, testthat (>= 0.11.0), httr
R (>= 2.14), methods, expm, matlab, igraph
R (>= 2.10), RSQLite, gdistance, geosphere
R (>= 2.10), RSQLite, gdistance, geosphere, sp, raster
R (>= 2.10), MGRASTer, BIOM.utils, graphics, stats, utils
R (>= 2.12.0), dfoptim, mvtnorm, seriation, igraph
R (>= 3.5.0), graphics, stats, utils, dplyr, tidyr, forecast,
ISOweek
R (>= 3.0.0), graphics, stats, TTR, zoo, fftw, signal
R (>= 2.12.0), methods, Rcpp, SparseM, tm
R (>= 2.13.0), methods, Rcpp, SparseM, tm
R (>= 2.14), fitdistrplus (>= 1.0-5), alabama
R (>= 3.2.0), fitdistrplus (>= 1.0-7), alabama
R (>= 3.4), fitdistrplus (>= 1.0-7), alabama
ade4, doParallel, foreach, kknn, parallel
R (>= 2.3.0), methods, modeltools, party (>= 0.8-6)
R (>= 2.14.0), methods, stats, parallel, survival
R (>= 2.14.0), methods, stats, parallel, stabs
R (>= 2.14.0), methods, stats, parallel, stabs (>= 0.5-0)
R (>= 3.2.0), methods, stats, parallel, stabs (>= 0.5-0)
pscl, MASS, KFAS, MCMCpack, Matrix, R(>= 3.5)
R (>= 3.0.0), glmnet, flexclust, Matrix, parallel, faraway,
methods, stats
methods, lattice, graphics, stats4, splines, mvtnorm,
multcomp, MASS, mratios
methods, lattice, graphics, stats4, splines, mvtnorm,
multcomp, MASS, mratios, lme4
ggplot2, splines, mvtnorm, multcomp, MASS
quadprog, ggplot2, splines, mvtnorm, multcomp, MASS
R (>= 3.2.0), methods, Matrix, numDeriv, boot, mvtnorm
R (>= 3.4.0), methods, Matrix, boot, mvtnorm
R (>= 3.5.0), smacof, clusterSim, symbolicDA
R (>= 3.6.0), smacof, clusterSim, symbolicDA
R (>= 2.0.0), dynlm, plm, kinship, survival, splines, nlme, lattice, zoo
R (>= 2.0.0), dynlm, plm, kinship, survival, splines, nlme,
lattice, zoo
R (>= 2.0.0), ConvergenceConcepts, dynlm, kinship, survival,
splines, nlme, lattice, plm, zoo
R (>= 2.0.0), ConvergenceConcepts, dynlm, survival, splines,
nlme, lattice, plm, zoo
R (>= 3.5.0), dynlm, nlme, tdigest, hdrcde
R (>= 3.0.0), dynlm, nlme, tdigest, hdrcde
R (>= 2.14), MASS, Matrix, lpSolve, methods
R (>= 2.15.1), MASS, Matrix, lpSolve, methods
R (>= 2.15.1), MASS, Matrix, lpSolve, methods, sandwich
R (>= 2.15.1), MASS, Matrix, lpSolve, sandwich
R (>= 2.15.1), MASS, Matrix, lpSolve, sandwich, mvtnorm
R (>= 2.15.1), MASS, Matrix, mvtnorm, sandwich
R (>= 1.8.0), caroline, network, sna, methods
lattice, grid, stats, methods, utils, MASS
R (>= 2.9.0), lattice, grid, stats, methods, utils, MASS
R (>= 2.9.0), lattice, stats, methods, utils, MASS
R (>= 3.4.0), lattice, stats, methods, utils, MASS
R (>= 3.0.0), lattice, stats, methods, utils, MASS
R (>= 3.3.0), lattice, stats, methods, utils, MASS
R (>= 3.2.3), lme4 (>= 1.1-10), stats, methods, nonnest2,
sandwich
R (>= 3.2.3), lme4 (>= 1.1-10), stats, methods, nonnest2,
sandwich, lavaan
R (>= 2.14.0), base, stats, graphics, MASS, numDeriv
R (>= 2.10), RGtk2, cairoDevice, methods, grid
R (>= 2.10), sp, methods, grid, shiny, shinyBS
R (>= 2.10), sp, methods, grid, shiny, shinyBS, caTools
R (>= 3.0.2), rpart, stats, methods, rpart.plot,
ggplot2,gridExtra
R (>= 3.0.2), stats, ggplot2, gridExtra, methods, rpart
R (>= 3.4.1), edarf, ggplot2, metafor, ranger, reshape2
R (>= 3.4.0), ggplot2, metafor, ranger, mmpf
R (>= 3.5.0), ggplot2, metafor, ranger, data.table, methods
stats, mvtnorm, ellipse, bbmle, rjags, coda
R (>= 2.10), stats, graphics, bbmle, survival
reshape, lattice, XML, MASS, methods, grid
Rcpp (>= 0.9.2), RcppArmadillo (>= 0.3), lava, mvtnorm,
numDeriv, splines, timereg, ucminf, prodlim
Rcpp (>= 0.9.2), RcppArmadillo (>= 0.3), lava (>= 1.1-12),
mvtnorm, numDeriv, splines, timereg (>= 1.6-8), prodlim
Rcpp (>= 0.9.2), RcppArmadillo (>= 0.2.17), lava, mvtnorm,
numDeriv, splines, timereg, ucminf, prodlim
Rcpp (>= 0.9.2), RcppArmadillo (>= 0.3), lava (>= 1.2),
mvtnorm, numDeriv, splines, timereg (>= 1.7), compiler, prodlim
Rcpp (>= 0.9.2), RcppArmadillo (>= 0.3.6), lava (>= 1.2.1),
mvtnorm, numDeriv, splines, timereg (>= 1.7), compiler, prodlim
R (>= 2.10.1), evd, numDeriv, corpcor, fields
R (>= 2.10), Formula, truncreg, maxLik, pbivnorm
R (>= 2.10), methods, Formula, truncreg, maxLik, survival,
texreg
methods, MASS, nnet, car, arm, lme4, R2WinBUGS, abind
methods, MASS, nnet, car, arm, Matrix, lme4, R2WinBUGS, abind
methods, MASS, nnet, car, arm (>= 1.3-08), Matrix, lme4,
R2WinBUGS, abind
R(>= 2.10.0), VIM, mi, mice, Amelia, lattice, vcd
R (>= 3.5.0), COMPoissonReg, matrixStats, survival, stringi
globaltest, GlobalAncova, limma, RepeatedHighDim, corpcor,
MASS
R (>= 3.5.0), methods, parallel, stats, utils
R (>= 2.4.0), MASS, nnet, methods, lattice, stringr
R (>= 2.4.0), MASS, nnet, methods, lattice
R (>= 2.10), MASS, nnet, lattice, methods
R (>= 2.10.0), methods, lattice, MASS, nnet
R (>= 3.5.0), microseq, microcontax, dplyr, stringr, rlang
R (>= 2.10), ggplot2, RColorBrewer, rgdal, grid
R (>= 2.10), ggplot2, maptools, RColorBrewer, rgdal, grid
R (>= 2.10), maptools, RColorBrewer, rgdal, sp
R (>= 3.5), maptools, RColorBrewer, rgdal, sp
R (>= 3.5), maptools, RColorBrewer, rgdal, sp, sf
R (>= 3.5.0), microseq, dplyr, stringr, igraph
R (>= 3.5.0), tibble, stringr, dplyr, rlang
R (>= 3.5.0), tibble, stringr, dplyr, data.table, rlang
R (>= 4.0.0), tibble, stringr, dplyr, data.table, rlang
R (>= 2.11.0), sandwich, optimx, quantreg
R (>= 3.5.0), data.table, MASS, lme4, qdap, Matrix
R (>= 3.5.0), data.table, MASS, qdap, Matrix
R (>= 3.5.0), stats, utils, graphics, grDevices,
R (>= 2.10), methods, psych, GPArotation, mvtnorm
R (>= 2.10), methods, lattice, psych, GPArotation, mvtnorm
R (>= 2.10), methods, lattice, psych, GPArotation, mvtnorm,
Matrix
R (>= 2.10), methods, lattice, psych, MASS, GPArotation,
mvtnorm, Matrix
R (>= 2.14), stats4, lattice, MASS, methods
stats, R (>= 3.1.0), stats4, lattice, methods
stats, R (>= 3.6.0), stats4, lattice, methods
survival, rms, relsurv, cmprsk, MASS, methods
R (>= 3.0.0), FactoMineR (>= 1.30),
graphics,grDevices,mice,mvtnorm,stats,utils
R (>= 2.14), graphics, grDevices, methods, stats, utils
R (>= 2.0.0), colorspace, lme4, mnormt, coda
R (>= 2.0.0), splines, colorspace, lme4, mnormt, coda
R (>= 2.10.0), splines, colorspace, lme4, mnormt, coda, snow,
snowfall
R (>= 2.10.0), splines, colorspace, lme4, mnormt, coda,
parallel
R (>= 3.5.0), mixOmics, ggplot2, reticulate (>= 1.14)
R (>= 2.10), igraph, rgl, lattice, pheatmap
R (>= 2.10), igraph0, rgl, lattice, pheatmap
R (>= 3.0.2), sde, moments, MASS, stats, graphics, methods
R (>= 2.0.0), tcltk, tcltk2, MASS, RODBC
R (>= 2.10.0), boot, MASS, segmented, stats
R (>= 2.15.1), biwt, cairoDevice, e1071, fBasics,
GeneSelector, grDevices, gplots, gWidgets, gWidgetsRGtk2, hash,
igraph, nnet, parmigene, pROC, qvalue, ROCR, rsgcc, stringr,
snowfall
R (>= 2.0.0), urca, fBasics, fGarch, lattice
R (>= 2.0.0), urca, stabledist, fGarch, lattice
R (>= 2.14.1), lme4, splines, car, gplots
R (>= 2.14.1), lme4, splines, car, gplots, abind
R (>= 2.14.1), lme4, splines, car, abind, coxme
R (>= 2.14.1), lme4, car, abind, coxme, gplots
R (>= 1.8.0), Formula, statmod, lmtest, maxLik, zoo
R (>= 2.10), Formula, statmod, lmtest, maxLik, zoo
R (>= 2.10), Formula, statmod, lmtest, maxLik, zoo, MASS
R (>= 3.0.0), ParamHelpers (>= 1.5), BBmisc (>= 1.9), ggplot2,
stats
R (>= 3.0.0), BBmisc (>= 1.9), ggplot2, ParamHelpers (>= 1.5),
stats
R (>= 3.0.2), BBmisc (>= 1.9), ggplot2, ParamHelpers (>= 1.6),
stats
R (>= 3.0.2), BBmisc (>= 1.9), ggplot2, ParamHelpers (>= 1.7),
stats
R (>= 3.0.2), BBmisc (>= 1.10), ggplot2, ParamHelpers (>=
1.8), stats, stringi
mlr3, mlr3db, mlr3filters, mlr3learners, mlr3pipelines,
mlr3tuning, paradox, R (>= 3.1.0)
mlr3, mlr3db, mlr3filters, mlr3learners, mlr3pipelines,
mlr3tuning, mlr3viz, paradox, R (>= 3.1.0)
mlr3, mlr3filters, mlr3learners, mlr3pipelines, mlr3tuning,
mlr3viz, paradox, R (>= 3.1.0)
R (>= 2.14.1), gbm, splines, survival, car, gplots
R (>= 2.14.1), gbm, car, gplots, splines
R (>= 2.14.1), gbm, car, gplots, splines, survival
R (>= 2.14.1), gbm, splines, survival, doParallel
R (>= 2.14.1), glmnet, mma, splines, survival, car
R (>= 3.0.2), expm, reshape2, stats, methods
R (>= 2.8.1), PolynomF (>= 0.93), SparseM (>= 0.79), stats,
utils, base
R (>= 4.0.0), methods, R6, LaF, foreach, doParallel
R (>= 3.4), ROI, ROI.plugin.glpk, ROI.plugin.quadprog
R (>= 2.3.0), stats, impute, grDevices, dynamicTreeCut
R (>= 2.10), alphahull, psych, geomorph, rgl
R (>= 2.10), alphahull, psych, geomorph, rgl, Rvcg
R (>= 2.10), alphahull, geomorph, rgl, Rvcg
R (>= 2.10), alphahull, rgl, Rvcg, pracma
R (>= 2.11.0), methods, mvtnorm, ncvreg, actuar
R (>= 2.11.0), methods, mvtnorm, ncvreg, actuar, mgcv
R (>= 2.14.0), methods, mvtnorm, ncvreg, actuar, mgcv
R (>= 2.14.0), methods, mvtnorm, ncvreg, mgcv
DT, monobin, shiny, shinydashboard, shinyjs
R (>= 4.1.0), rgl, reshape2, igraph, stringr
R (>= 3.0.0), car, dplyr, lattice (>= 0.20-21), ggplot2,
mosaicData
R (>= 3.0.0), dplyr, lattice (>= 0.20-21), ggplot2, car,
mosaicData
R (>= 3.0.0), dplyr, lattice (>= 0.20-21), ggplot2,
mosaicData, Matrix
R (>= 2.10), lattice, grid, methods, Hmisc
R (>= 2.10), lattice, grid, methods, Hmisc, utils
R (>= 2.10), lattice, grid, methods, Hmisc, utils, RCurl
R (>= 2.10), lattice, grid, methods, survival, Hmisc, utils
R (>= 3.0.0), dplyr, lattice (>= 0.20-21), ggformula,
mosaicData
R (>= 3.0.0), dplyr, lattice (>= 0.20-21), ggformula,
mosaicData, Matrix
R (>= 2.10.0), ape, mvtnorm, MASS, caper, laser
R (>= 2.10.0), ape (>= 3.0-7), caper, mvtnorm, coda, MASS
sp, raster, rgdal, methods, geosphere, R (>= 2.14.0)
sp, raster, rgdal, methods, geosphere, R (>= 2.15.0)
R (>= 3.2.2), mlbench, bayesm, cvTools, mlogit
R (>= 2.6.0), drc, locfit, EffectiveDose
R (>= 2.14), methods, Matrix, blme, arm, sp, lattice, plyr,
reshape2, mrpdata
R (>= 2.5.0), RSQLite (>= 0.5-6), wmtsa, robust, XML, stats
R (>= 2.5.0), methods, graphics, RSQLite (>= 0.5-6), wmtsa, robust,
XML, stats
R (>= 2.12.0), methods, graphics, wmtsa, robust, XML, stats
R (>= 2.14.0), methods, graphics, wmtsa, robust, XML, stats
R (>= 2.0), methods, class, graph, lattice
R (>= 2.14.0), ade4, scrime, pegas, cba, ape
R (>= 2.13.0), Matrix, RcppProgress, RcppArmadillo, BH
R (>= 3.0.0), Matrix, RcppProgress, RcppArmadillo, BH
R (>= 2.10), MASS, lattice, ggplot2, gridExtra
R (>= 1.9.0), stats, class, glmnet, stats4, e1071, rgl,
RColorBrewer, colorspace
R (>= 2.10), stats, class, glmnet, stats4, e1071, rgl,
RColorBrewer, colorspace
R (>= 2.10), Matrix, stats, class, glmnet, stats4, e1071, rgl,
RColorBrewer, colorspace
R (>= 2.15.0), base, stringr, graphics, methods, XML,
sensitivity, lhs, rgl
R (>= 3.3.3), gtools, zoo, ggplot2, reshape2, stats, utils
R (>= 3.3.3), yesno, gtools, zoo, ggplot2, reshape2, stats,
utils
stats, graphics, mvtnorm (>= 0.8-0), survival
stats, graphics, mvtnorm (>= 0.8-0), survival (>= 2.35-7)
stats, graphics, mvtnorm (>= 0.8-0), survival (>= 2.35-7),
TH.data (>= 1.0-2)
stats, graphics, mvtnorm (>= 1.0-3), survival (>= 2.35-7),
TH.data (>= 1.0-2)
stats, graphics, mvtnorm (>= 1.0-10), survival (>= 2.39-4),
TH.data (>= 1.0-2)
stats, graphics, mvtnorm (>= 1.0-3), survival (>= 2.39-4),
TH.data (>= 1.0-2)
lars (>= 0.9-8), penalized, polspline, randomForest, rpart
lars (>= 0.9-8), penalized, polspline, rpart
igraph, graphics, plotly, shiny, shinythemes, stats
R (>= 4.0.0), ranger, Boruta, dunn.test, caret, Biobase,
switchBox
ggplot2, plyr, psych, reshape, proto, grid, xtable, R (>=
2.15.1)
ggplot2, plyr, psych, reshape, proto, grid, xtable, R (>= 3.0)
igraph (>= 1.0.1), Rcpp (>= 0.12.11), methods, RColorBrewer
igraph (>= 1.0.1), Rcpp (>= 1.0.1), methods, RColorBrewer
igraph (>= 1.2), Rcpp (>= 1.0.1), methods, RColorBrewer
igraph (>= 1.2), Rcpp (>= 1.0), methods, RColorBrewer
R (>= 3.5.0), survival, pROC, methods, mgcv, snowfall
R (>= 3.5.0), survival, pROC, risksetROC, mgcv, snowfall
R (>= 2.10), survival, statmod, date, relsurv
R(>= 2.10.0), emulator (>= 1.2-8), methods, utils, abind
R (>= 2.6.0), gtools, mvtnorm, sandwich, MASS
R (>= 2.6.0), gtools, mvtnorm, sandwich, MASS, Rcpp
R (>= 2.1.0), methods, Biobase, survival
car, pdist, pls, gplots, mvtnorm, pcaPP, rrcov, robustbase,
gtools, bitops, caTools
car, pdist, pls, gplots, mvtnorm, robustbase, gtools, bitops,
caTools, pcaPP, rrcov
R (>= 3.2.0), Familias, paramlink, expm, IBDsim
R(>= 3.1.0), doParallel, ggplot2, foreach
R (>= 2.8.0), multcomp (>= 1.1-0), methods, plotrix
R (>= 2.10.0), multcomp (>= 1.1-0), methods, plotrix, lattice
R (>= 2.10.0), multcomp (>= 1.1-0), methods, plotrix, lattice,
multtest (>= 2.2.0)
R (>= 2.8.0), mutoss (>= 0.1-6), multcomp, plotrix
R (>= 2.8.0), rJava (>= 0.8-0), JavaGD (>= 0.5-2),
CommonJavaJars, plotrix, mutoss (>= 0.1-0), multcomp
R (>= 2.8.0), rJava (>= 0.8-0), JavaGD (>= 0.5-2),
CommonJavaJars, plotrix, mutoss (>= 0.1-6), multcomp
R (>= 3.2), fields, wavethresh, xts, zoo
R (>= 3.2),fields, wavethresh, xts, zoo,methods
R(>= 2.9.1), phytools, ape, corpcor, subplex
R(>= 2.9.1), phytools, ape, corpcor, subplex, spam
R (>= 3.5.0), phytools, ape, corpcor, subplex
R(>= 2.9.1), ouch, ape, numDeriv, mvtnorm, corpcor
R (>= 3.1.0), Formula, nlme, MNM, quantreg, Rfit
R (>= 3.0), rcdd, rgl, geometry, abind, SimplicialCubature
minqa, BB, ucminf, dfoptim, R (>= 3.1.0)
R (>= 3.5.0), minqa, BB, ucminf, dfoptim
minqa, BB, ucminf, dfoptim, R (>= 3.5.0)
R (>= 2.10), robustbase, compositions, robCompositions
robustbase, compositions, robCompositions, R (>= 2.10)
robustbase, compositions, robCompositions, sgeostat, R (>=
2.10)
robustbase, compositions, robCompositions, sgeostat, R (>=
2.15.1)
robustbase, compositions, robCompositions, sgeostat, R (>=
2.14)
R (>= 2.14.0), graphics, stats, grDevices
R (>= 2.13.0), methods, splines, RColorBrewer
R (>= 3.0.0), drc, gdata, gWidgets, kyotil
R (>= 3.1.3), drc, gdata, gWidgets, kyotil
R (>= 3.3.0), drc, gdata, gWidgets, kyotil
R (>= 3.3.0), drc, gdata, kyotil, gWidgets2
R (>= 2.9.2), MASS, psych, boot, lattice
R (>= 2.0.0), MASS, psych, boot, lattice
R (>= 3.0), network (>= 1.13),networkDynamic (>=
0.8),animation (>= 2.4),sna
R (>= 3.0), network (>= 1.13),networkDynamic (>=
0.9),animation (>= 2.4),sna
R (>= 2.15), network (>= 1.7.2),networkDynamic (>=
0.4.1),animation,sna,statnet.common
R (>= 3.0), network (>= 1.8),networkDynamic (>=
0.5),animation,sna,statnet.common
R (>= 3.0), network (>= 1.9),networkDynamic (>=
0.6),animation,sna
R (>= 3.0), network (>= 1.12),networkDynamic (>=
0.6),animation (>= 2.3),sna
R (>= 2.10), gstat, rgdal, bfast, RTisean, RColorBrewer,
lattice
optimbase (>= 1.0-9), optimsimplex (>= 1.0-5), methods
optimbase (>= 1.0-9), optimsimplex (>= 1.0-7), methods
optimbase (>= 1.0-8), optimsimplex (>= 1.0-5), methods
R (>= 2.12), AnnotationDbi, pathClass, Matrix,graph, igraph,
samr
R (>= 2.14), AnnotationDbi, pathClass, Matrix,graph, igraph,
samr
cvTools, corpcor, glasso, glmnet, igraph
R (>= 2.10), BiocGenerics, Biobase, igraph, limma
R (>= 3.1.1), BiocGenerics, Biobase, igraph, limma
R (>= 2.10.1), Rniftilib, AnalyzeFMRI, deSolve
R (>= 3.0.0), stringr, hash, iterators, abind, methods
R (>= 3.0.0), stringr, hash, methods, stats, grDevices, grid,
utils
R (>= 3.4.0), httr, dplyr, RCurl, jsonlite
R (>= 2.10), a4Core, MLInterfaces (>= 1.22.0), xtable
R (>= 2.15.0), minpack.lm, optimx, Rvmmin, Rcgmin, numDeriv
R (>= 2.0.0), alr3, car, drc, HydroMe, lattice, lmtest, MASS, NISTnls, nlme, nls2, nlstools, NRAIA, sandwich
R (>= 2.0.0), alr3, car, drc, HydroMe, lattice, lmtest, MASS,
NISTnls, nlme, nls2, nlstools, NRAIA, sandwich
R (>= 2.0.0), alr3, boot, car, drc, HydroMe, lattice, lmtest, MASS, NISTnls, nlme, nlstools, nls2, plotrix, sandwich
R (>= 3.1.0), stats, graphics, orthopolynom
R (>= 4.0), systemfit, DEoptim, data.table, magrittr, maxLik
sp, rgdal, spBayes, gplots, vcd, MASS, MBA, fields, yaImpute,
geoR
R (>= 3.4.0), fields, rTensor, plot3D, tagcloud
R (>= 3.0), picante, raster, ape, sp, vegan
Matrix, rgl, tseries, TSA, Rcpp (>= 0.10.5)
Matrix, rgl, tseries, TSA, Rcpp (>= 0.10.5), graphics, stats
R (>= 3.0.0), mvtnorm, lattice, latticeExtra, MASS, xpose4
R (>= 3.0.0), mvtnorm, lattice, latticeExtra, MASS, ggplot2
R (>= 1.8.0), lpSolve, gdata, Hmisc, Design, geometry, psych,
pwt
R (>= 1.8.0), lpSolve, gdata, Hmisc, rms, geometry, psych, pwt
R (>= 3.3.3), httr, jsonlite, stringr, dplyr
R (>= 2.9.1), splines, graphics, Rglpk, Benchmarking
R (>= 2.9.1), splines, quadprog, graphics, Rglpk, Benchmarking
R (>= 1.7), quantreg, SparseM, tripack, akima
R (>= 1.7), quantreg, SparseM, tripack, akima, rgl
R (>= 3.0.0), EBImage, bioimagetools (>= 1.0.0)
R (>= 3.0.0), EBImage, bioimagetools (>= 1.1.4)
R (>= 3.0.0), EBImage, bioimagetools (>= 1.0)
R (>= 2.10), nutshell.bbdb, nutshell.audioscrobbler
R (>= 2.15), utils, methods, gsw, testthat
R (>= 2.15), utils, methods, testthat, gsw
R (>= 2.15), gsw, methods, testthat, utils
R (>= 2.15), gsw, methods, sf (>= 0.9.0), testthat, utils
R (>= 3.0.2), graphics, methods, ncdf4, proj4
R (>= 2.10), maps, mapdata, raster, extrafont
R (>= 3.5.0), maps, mapdata, raster, extrafont
R (>= 2.11.0), lme4, mvtnorm, fields, graphics
R (>= 2.11.0), stats, graphics, lme4, mvtnorm
curl, dplyr, jsonlite, readr, servr, R (>= 2.10)
R(>= 3.0.0), dbplyr, dplyr, DBI, RSQLite
R (>= 3.5), shiny, ontologyIndex, visNetwork
R (>= 2.10), airports, cherryblossom, usdata
R (>= 2.11.0), som, fastICA, pixmap, igraph, ape
R (>= 2.11.0), som, fastICA, pixmap, igraph, ape, biomaRt
R (>= 3.3.1), MASS, Matrix, igraph, tcltk
numDeriv, BB, ucminf, Rcgmin, Rvmmin, minqa, setRNG
R (>= 2.15.1), stats, methods, graphics, digest
R (>= 2.15.1), stats, methods, graphics, survival
R (>= 3.3.2), MASS, Matrix, igraph, tcltk
R (>= 2.10), MASS, Rglpk, sampling, ggplot2
grplasso, mgcv, RLRsim, quadprog, glmpath
R (>= 3.5), faux, dplyr, brms, tidyr, stats
R (>= 3.5), faux, dplyr, brms, tidyr, stats, ggplot2
R (>= 2.11.0), methods, graphics, lattice, hash, grid
R (>= 2.15.0), methods, graphics, lattice, hash, grid
DESeq2, R (>= 2.10), SummarizedExperiment
R (>= 2.10.0), grDevices, graphics, methods, utils
R (>= 2.10), grDevices, graphics, methods, utils
R (>= 2.10.0), graphics, grDevices, methods, utils
R (>= 2.13.0), graphics, grDevices, methods, utils
R (>= 2.13.0), bitops, graphics, grDevices, methods, utils,
XML
R (>= 2.13.0), bitops, graphics, grDevices, methods, utils
R (>= 2.14.0), grDevices, methods, oro.nifti (>= 0.2.9), utils
R (>= 2.10), methods, XML, RCurl, gtools, geosphere
R (>= 2.10), methods, XML, RCurl, geosphere
R(>= 3.0.0), methods, stats, graphics, subplex
R(>= 3.6), methods, stats, graphics, subplex
R(>= 2.6.1), methods, stats, graphics, subplex
R(>= 2.9.1), methods, stats, graphics, subplex
R (>= 2.8.1), e1071, cba, cluster, gtools, methods
ggplot2, coin, grDevices, graphics, stats
plyr, MASS, utils, stats, graphics, R (>= 2.10)
R (>= 2.10), methods, grid, ggplot2, cwhmisc
ggm, igraph, ppls, MASS, gRbase, corpcor, glmnet, mvtnorm
ggm, igraph0, ppls, MASS, gRbase, corpcor, glmnet, mvtnorm
ggm, igraph, ppls, MASS, corpcor, glmnet, mvtnorm, lcd
R (>= 3.5.0), S4Vectors, Biostrings, ggplot2
R (>= 2.2.0), stats, exactRankTests, Hmisc, boot, mratios, binMto
R (>= 2.2.0), stats, exactRankTests, Hmisc, boot, mratios, binMto, MASS
R (>= 2.2.0), stats, exactRankTests, Hmisc, boot, mratios, binMto, MASS, MCPAN
R (>= 2.2.0), stats, exactRankTests, boot, mratios, binMto, MASS, MCPAN
R (>= 2.2.0), stats, exactRankTests, boot, mratios, binMto,
MASS, MCPAN
R (>= 2.2.0), stats, exactRankTests, Hmisc, boot, mratios
rioja, vegan, TeachingDemos, gstat, fields, mapproj
car, nlme, lme4, survival, utils, gmodels
R (>= 3.2.2), TIMP, shiny, shinydashboard, colorspace, fields
R (>= 3.0.0), TIMP, shiny, shinydashboard, colorspace, fields
R (>= 3.0.1), parallel, mboost, party, iterators
R (>= 2.0.1), survival, grid, modeltools, coin
R (>= 2.0.1), survival, grid, modeltools (>= 0.2-3), coin (>= 0.3-8),
zoo, sandwich (>= 1.1-1), strucchange
R (>= 2.0.1), survival, grid, modeltools (>= 0.2-6), coin (>= 0.4-10),
zoo, sandwich (>= 1.1-1), strucchange
R (>= 2.0.1), methods, survival, grid, modeltools (>= 0.2-6), coin (>= 0.4-10),
zoo, sandwich (>= 1.1-1), strucchange
R (>= 2.0.1), methods, survival, grid, modeltools (>= 0.2-6), coin (>= 0.6-0),
zoo, sandwich (>= 1.1-1), strucchange, vcd
R (>= 2.0.1), methods, survival, grid, modeltools (>= 0.2-6), coin (>= 0.6-4),
zoo, sandwich (>= 1.1-1), strucchange, vcd
R (>= 2.0.1), methods, survival, grid, modeltools (>= 0.2-6), coin (>= 0.4-10),
zoo, sandwich (>= 1.1-1), strucchange, vcd
R (>= 2.0.1), methods, survival, grid, modeltools (>= 0.2-6),
coin (>= 0.6-4), zoo, sandwich (>= 1.1-1), strucchange, vcd
R (>= 2.0.1), methods, survival, grid, modeltools (>= 0.2-6),
coin (>= 0.6-4), zoo, sandwich (>= 1.1-1), strucchange, vcd,
stats
R (>= 2.14.0), methods, survival, grid, modeltools (>=
0.2-19), coin (>= 1.0-0), zoo, sandwich (>= 1.1-1),
strucchange, vcd, stats
R (>= 2.14.0), methods, grid, zoo, sandwich (>= 1.1-1),
strucchange, stats, modeltools (>= 0.2-21)
R (>= 2.14.0), methods, grid, stats, mvtnorm (>= 1.0-2),
modeltools (>= 0.2-21), strucchange
R (>= 3.0.0), methods, grid, stats, mvtnorm (>= 1.0-2),
modeltools (>= 0.2-21), strucchange
R (>= 3.5.0), graphics, grid, libcoin (>= 1.0-0), mvtnorm
R (>= 3.1.0), graphics, grid, libcoin (>= 1.0-0), mvtnorm
R (>= 2.9.0), svmpath, kernlab, affy, Biobase, ROCR, Matrix,
igraph, KEGGgraph, lpSolve
R (>= 2.9.0), svmpath, kernlab, affy, Biobase, ROCR, Matrix,
igraph, lpSolve
R (>= 2.9.0), svmpath, kernlab, affy, Biobase, ROCR, igraph,
lpSolve
R (>= 2.10), svmpath, kernlab, affy, Biobase, ROCR, igraph,
lpSolve
R (>= 2.14), svmpath, kernlab, affy, Biobase, ROCR, igraph,
lpSolve
R (>= 2.13.0), methods, rlecuyer, pbdMPI (>= 0.1-1), pbdSLAP,
Rcpp
R (>= 2.15.1), methods, rlecuyer, Rcpp, pbdMPI (>= 0.1-1),
pbdSLAP
R (>= 2.15.0), methods, rlecuyer, pbdMPI (>= 0.1-1), pbdSLAP,
Rcpp (>= 0.9.10), pbdBASE
R (>= 2.13.0), methods, rlecuyer, pbdMPI (>= 0.1-4)
R (>= 2.14.0), methods, rlecuyer, pbdMPI (>= 0.1-6)
R (>= 2.14.0), methods, graphics, grid, ggplot2
R (>= 2.14.0), methods, graphics, grid, ggplot2, gridExtra
R (>= 3.0.0), methods, graphics, grid, ggplot2, gridExtra
R (>= 3.0.0), methods, graphics, grid, ggplot2, gridExtra,
reshape2
R (>= 2.13.0), methods, rlecuyer, pbdMPI (>= 0.1-1)
R (>= 2.13.0), methods, rlecuyer, pbdMPI (>= 0.1-3)
R (>= 2.14.0), methods, rlecuyer, pbdMPI (>= 0.1-5)
R (>= 3.0.0), methods, rlecuyer, pbdMPI (>= 0.2-2)
R (>= 3.0.0), methods, rlecuyer, pbdMPI (>= 0.2-3)
R (>= 3.0.0), methods, rlecuyer, pbdMPI (>= 0.3-1)
R (>= 3.5.0), methods, rlecuyer, pbdMPI (>= 0.3-1)
R (>= 3.6.0), methods, rlecuyer, pbdMPI (>= 0.3-1)
R (>= 2.14.1), polycor, ltm, stats, ggplot2, mc2d
R (>= 3.0.0), polycor, ltm, stats, ggplot2, mc2d
R (>= 3.3.0), polycor, ltm, stats, ggplot2, mc2d, sfsmisc
R (>= 3.3.1), polycor, ltm, stats, ggplot2, mc2d, sfsmisc
methods, MASS, graph, robustbase, Rgraphviz
methods, MASS, graph, robustbase, Rgraphviz, ggm
methods, MASS, graph, robustbase, Rgraphviz, ggm, mnormt
methods, MASS, graph, robustbase, Rgraphviz, ggm, mnormt, vcd, RBGL, sfsmisc
methods, MASS, graph, robustbase, Rgraphviz, ggm, mnormt, vcd,
RBGL, sfsmisc
abind, corpcor, methods, MASS, graph, Rgraphviz, ggm, vcd,
RBGL, sfsmisc, robustbase
abind, corpcor, methods, MASS, graph, ggm, vcd, RBGL, sfsmisc,
robustbase
R (>= 2.4.0), MCMCglmm, kinship, grid, MasterBayes
R (>= 2.4.0), MasterBayes, MCMCglmm, kinship2, grid
R (>= 2.4.0), MasterBayes, MCMCglmm, kinship2, grid, genetics
R (>= 2.15.0), stats, Matrix, CompQuadForm, kinship2 (>=
1.5.3)
R (>= 3.0.1), stats, Matrix, CompQuadForm, survey, kinship2
(>= 1.5.4)
R (>= 3.1.1), stats, Matrix, CompQuadForm, survey, kinship2
(>= 1.6.0)
R (>= 3.2.0), stats, Matrix, CompQuadForm, survey, kinship2
(>= 1.6.0)
R (>= 3.5.0), stats, Matrix, CompQuadForm, survey, kinship2
forrel, pedmut, pedprobr, pedtools, ribd
forrel, pedprobr, pedtools, ribd, verbalisr
R (>= 2.11.0), lattice, quadprog, doMC, TSP, fda
R (>= 2.15.1), lattice, quadprog, TSP, fda, Matrix
R (>= 2.15.1), lattice, TSP, fda, Matrix, foreach
R (>= 2.11.0), lattice, quadprog, TSP, fda
R (>= 2.15.1), lattice,igraph, fda, Matrix
e1071, MASS, corpcor, statmod, tgp, mlegp, lhs
R (>= 2.8.0), lattice, fda, quadprog, spam
R (>= 2.11.0), lattice, fda, quadprog, spam, latticeExtra
R (>= 2.11.0), lattice, fda, quadprog, spam, latticeExtra,
MASS
R (>= 2.15.1), lattice, fda, quadprog, latticeExtra
R (>= 3.1.1), lattice, fda, latticeExtra, pacotest
R (>= 2.8.0), MASS, snow, rlecuyer, penalized, survival
R (>= 2.10), MASS, snow, rlecuyer, penalized, survival
R (>= 2.10.0), MASS, snow, rlecuyer, penalized, survival
R (>= 2.2.0), methods, utils, graphics, stats
R(>= 3.0), methods, graphics, ggplot2 (>= 0.9.3)
R (>= 2.10), plyr, lmPerm, ggplot2, viridis
R (>= 2.14.1), ggplot2, parallel, robustbase
R (>= 2.14.1), ggplot2 (>= 0.9.2), parallel, robustbase
glmnet (>= 2.0-13), mgcv, gbm, ggplot2, plotly
glmnet (>= 2.0-13), mgcv, ggplot2, plotly
R (>= 2.10), ggplot2, foreach, ape, doParallel, parallel
R (>= 2.10), ggplot2, foreach, ape, doParallel, parallel,
grDevices, stats, methods
R (>= 2.12.0), orthogonalsplinebasis (>= 0.1.2), methods,
utils, graphics, stats, MASS, mvbutils
utils, stashR, filehash, tikzDevice, cacheSweave, getopt
stashR, filehash, tikzDevice, cacheSweave, getopt
stashR, filehash, tikzDevice, cacheSweave, getopt, highlight
stashR, filehash, tikzDevice, cacheSweave, getopt, highlight,
formatR
stashR, filehash, highlight, optparse, formatR
stashR, filehash, highlight, formatR, cacheSweave
R (>= 3.0.0), coda, boot, rjags, mvtnorm
R (>= 3.0.0), coda, boot, rjags, mvtnorm, ggplot2
R (>= 3.0.0), ggplot2, dplyr, reshape, grid
R (>= 2.14), gstat, RColorBrewer, lattice, pheno
R (>= 3.0), gstat, RColorBrewer, lattice, pheno
R (>= 1.6), nlme, SparseM, quantreg, nprq
R (>= 4.0), nlme, SparseM, quantreg, methods, stats
R (>= 2.10.1), graphics, stats, utils, qtl, mixtools
R (>= 2.14.1), graphics, stats, utils, qtl, VGAM, mixtools
data.table, lubridate, rjson, RCurl, utils,
R (>= 3.4.0), data.table, rjson, RCurl, utils,
fields, zoo, coda, shiny, XML, R (>= 2.14.0)
fields, zoo, coda, HelpersMG, shiny, R (>= 2.14.0)
fields, zoo, coda, HelpersMG (>= 1.2), shiny, R (>= 2.14.0)
fields, zoo, coda, HelpersMG (>= 1.3.4), shiny, R (>= 2.14.0)
fields, parallel, zoo, coda, HelpersMG (>= 1.3.4), R (>=
2.14.0)
numDeriv, parallel, optimx, lmf, HelpersMG (>= 1.7.5), R (>=
2.14.0)
numDeriv, parallel, optimx, lmf, HelpersMG (>= 2.0), R (>=
2.14.0)
numDeriv, parallel, optimx, lmf, HelpersMG (>= 2.0), R (>=
3.4)
numDeriv, parallel, optimx, lmf, HelpersMG (>= 3.2), R (>=
3.4)
numDeriv, parallel, optimx, lmf, HelpersMG (>= 4.1.3), R (>=
3.5)
numDeriv, parallel, optimx, HelpersMG (>= 5.5), R (>= 4.1)
R (>= 3.2.0), photobiology (>= 0.9.8), photobiologyWavebands
(>= 0.4.0)
R (>= 3.2.0), photobiology (>= 0.9.14), photobiologyWavebands
(>= 0.4.2)
R (>= 3.5.0), photobiology (>= 0.9.28), photobiologyWavebands
(>= 0.4.3)
methods, phylobase (>= 0.6.2), ape (>= 2.5)
grid, graphics, grDevices, stats, utils, ape, phylobase,
datasets, methods (>= 2.15.2)
methods, grid, ape(>= 2.1), Rcpp (>= 0.9)
R (>= 2.6), ape, phangorn, mnormt, calibrate, msm
R (>= 2.15.0), ggplot2, stats, png, FrF2, DoE.base
R (>= 2.15.1), MASS, XML, ggplot2 (>= 0.9.3), plyr, reshape,
lubridate, stringr, hexbin
R (>= 2.15.1), MASS, XML, ggplot2 (>= 0.9.3), plyr, reshape,
lubridate, stringr, hexbin, rgl
R (>= 2.15.1), MASS, XML, ggplot2 (>= 0.9.3), plyr, reshape,
lubridate, stringr, hexbin, mgcv, rgl
bayesmix, rjags, runjags, mvtnorm, RcmdrMisc
PROcess, plyr, ROCR, randomForest, caMassClass
R (>= 2.15), methods, stats, digest, stringr, codetools
R (>= 2.0.0), foreign, binr, forestplot, rtf
methods, Rcpp (>= 0.9.5), RcppArmadillo (>= 0.2.3), statmod,
cubature
methods, reshape2, Rcpp (>= 0.9.5), RcppArmadillo (>= 0.2.3),
statmod, cubature
methods, reshape2, Rcpp (>= 0.9.5), RcppArmadillo (>= 0.2.3),
statmod, cubature, grid
methods, conf.design, biganalytics, bigmemory (>= 4.2.3)
R (>= 2.5.0), lattice (>= 0.16), latticeExtra (>= 0.5-1), grid, gWidgets, gWidgetsRGtk2, cairoDevice
R (>= 2.5.0), lattice (>= 0.16-3), latticeExtra (>= 0.5-1), grid, gWidgets, gWidgetsRGtk2, cairoDevice
R (>= 2.7.0), lattice (>= 0.16-3), latticeExtra (>= 0.5-2), cairoDevice, gWidgetsRGtk2, grid
R (>= 2.5.0), lattice (>= 0.16), grid, gWidgets, gWidgetsRGtk2, cairoDevice
R (>= 2.7.0), lattice (>= 0.16-3), latticeExtra (>= 0.5-3), cairoDevice, gWidgetsRGtk2 (>= 0.0-45), grid
R (>= 2.7.0), lattice (>= 0.16-3), cairoDevice, gWidgetsRGtk2 (>= 0.0-45), grid
R (>= 2.7.0), lattice (>= 0.16-3), cairoDevice, gWidgetsRGtk2
(>= 0.0-45), grid
R (>= 2.7.2), methods, statmod, lattice, MASS
R (>= 2.9), methods, statmod, lattice, MASS
R (>= 2.9.0), methods, statmod, lattice, MASS
R (>= 2.9.1), methods, statmod, lattice, MASS
R (>= 2.9.2), methods, statmod, lattice, MASS
R (>= 1.8.0), stats, kinship, nlme, Formula
R (>= 1.8.0), stats, kinship, nlme, Formula, MASS, sandwich
R (>= 1.8.0), stats, kinship, nlme, Formula (>= 0.2-0), MASS,
sandwich
R (>= 2.10), stats, bdsmatrix, nlme, Formula (>= 0.2-0), MASS,
sandwich, zoo
R (>= 2.10), stats, bdsmatrix, nlme, Formula (>= 0.2-0), MASS,
sandwich
R (>= 2.14.2), MASS, splines, limma, R.oo
R (>= 2.10.0), sp, rgdal, maptools,lattice
R (>= 2.10.0), rgdal, methods, XML, sp, pixmap, raster, plyr,
colorspace, grDevices, plotrix, colorRamps, stringr,
RColorBrewer, Hmisc, gstat, spacetime, xts, aqp, scales, dismo
R (>= 2.13.0), rgdal, methods, XML, sp, pixmap, raster, plyr,
colorspace, grDevices, plotrix, colorRamps, stringr,
RColorBrewer, Hmisc, gstat, spacetime, xts, aqp, scales, dismo
R (>= 3.2.0), Formula (>= 1.2-3), plotrix, TeachingDemos
R (>= 3.4.0), Formula (>= 1.2-3), plotrix, TeachingDemos
R (>= 3.0.1), amap, diagram, tester, turner
R (>= 3.2), dplyr, purrr, rlang, tibble, glue
R (>= 2.13.0), methods, rlecuyer, pbdMPI, MASS, MixSim
R (>= 3.0.0), methods, rlecuyer, pbdMPI (>= 0.2-2), MASS
lattice, MASS, gWidgets(>= 0.0-15), gWidgetsRGtk2(>= 0.0-13)
lattice, MASS, gWidgets(>= 0.0-21), gWidgetsRGtk2(>= 0.0-22)
lattice, MASS, proto, foreign, gWidgets(>= 0.0-22), gWidgetsRGtk2(>= 0.0-25)
lattice, MASS, proto, foreign, gWidgets(>= 0.0-36),
gWidgetsRGtk2(>= 0.0-53)
MASS, stringr, magrittr, data.tree, DiagrammeR
glmnet (>= 1.5.1), ncvreg, Formula, Matrix
glmnet (>= 1.5.1), ncvreg, Formula, Matrix, miscTools
R(>= 2.6.1), stats, methods, graphics, odesolve
R(>= 2.6.1), stats, methods, graphics, deSolve, subplex
R(>= 2.7.1), stats, methods, graphics, deSolve, subplex
R(>= 2.8.1), stats, methods, graphics, deSolve, subplex,
mvtnorm
R(>= 2.9.1), stats, methods, graphics, deSolve, subplex,
mvtnorm
R(>= 2.10.1), stats, methods, graphics, mvtnorm, subplex,
deSolve
R(>= 2.13.1), stats, methods, graphics, mvtnorm, subplex,
deSolve
R(>= 2.14.2), stats, methods, graphics, mvtnorm, subplex,
deSolve
R(>= 2.14.1), stats, methods, graphics, mvtnorm, subplex,
deSolve
R(>= 2.14.1), stats, graphics, methods, mvtnorm, subplex,
deSolve
R(>= 2.14.1), stats, graphics, methods, mvtnorm, subplex,
nloptr, deSolve
R(>= 2.15.1), stats, graphics, methods, mvtnorm, subplex,
nloptr, deSolve
R(>= 3.0.0), stats, graphics, methods, mvtnorm, subplex,
nloptr, deSolve, coda
R(>= 3.3.1), EmpiricalBrownsMethod(>= 1.6.0), Hmisc(>= 4.1)
R (>= 3.0), methods, utils, foreach, doParallel, parallel
graphics, stats, methods, grDevices, R (>= 2.10)
R (>= 2.10.0), Hmisc, lattice, grid, xpose4
R (>= 2.12.2), Hmisc, lattice, grid, xpose4
R (>= 2.15.1), adegenet, pegas, vegan, ggplot2, phangorn, ape,
igraph
R (>= 2.0.0), methods, graphics, grid, lattice
R (>= 2.0.0), methods, graphics, grid, lattice, nlme
R (>= 2.4.0), methods, graphics, grid, lattice, nlme
R (>= 2.10), methods, graphics, grid, lattice, nlme
R (>= 3.0), methods, graphics, grid, lattice
R (>= 3.0), graphics, grid, lattice, methods
R (>= 3.5), xts, MASS, magrittr, modopt.matlab
R (>= 2.4.0), methods, lattice, portfolio
R (>= 2.4.0), methods, lattice, portfolio (>= 0.3-3)
R (>= 2.4.0), methods, lattice, portfolio (>= 0.4-0)
R (>= 2.10), methods, lattice, portfolio (>= 0.4.0)
R (>= 2.11.0), biomaRt, genetics, igraph (>= 0.6-2)
R (>= 2.11.0), biomaRt, genetics, lattice, igraph (>= 0.6-2)
R (>= 2.11.0), data.table, biomaRt, lattice, GenABEL, igraph
(>= 0.6-2)
R (>= 4.0.0), spatstat.core, spatstat.geom, spatstat (>=
2.0-0)
R (>= 2.11.1), processdata (>= 0.6), ggplot2, Matrix, splines,
methods
R (>= 2.14.1), processdata (>= 0.8), reshape2, ggplot2 (>=
0.9.0), methods, igraph
R (>= 2.10.0), boot, methods, stats, stats4, lme4, Hmisc
R (>= 3.3.0), partykit, glmnet, MatrixModels, Formula,
methods, graphics
R (>= 3.1.0), partykit, glmnet, MatrixModels, Formula,
methods, graphics
magrittr, escalation, data.table, R (>= 2.10)
magrittr, escalation, data.table, R (>= 3.5.0)
magrittr, escalation, data.table, R6, R (>= 4.0.0)
R (>= 3.5.0), lme4, nlme, lmeInfo, parallel
R (>= 3.0.0), stats, graphics, gnm (>= 1.0-0), colorspace
pressData, gWidgets, RGtk2, gWidgetsRGtk2, Rcmdr, rgl, car,
outliers, MASS
R (>= 2.10), methods, sp, gstat, maptools, fields, GenKern,
rgdal (>= 0.7-4), geoR, tcltk
R (>= 2.10), foreign, methods, sp, gstat, maptools, fields,
GenKern, rgdal (>= 0.7-4), geoR, tcltk
R (>= 2.10), methods, sp, gstat, GenKern, rgdal (>= 0.7-4),
fields
R (>= 2.10), methods, sp, rgdal (>= 0.7-4), ggplot2,
directlabels
R (>= 2.10), sp, rgdal (>= 0.7-4), ggplot2, directlabels
R (>= 2.14.1), ggplot2, methods, reshape2
R (>= 2.10), Rsolnp, DEoptim, dplyr, parallel, Matrix, methods
R (>= 2.10), dplyr, parallel, Matrix, methods
R (>= 1.9.1), stats, KernSmooth, survival
ggplot2, MASS, reshape, methods, plyr, R (>= 3.0.2)
ggplot2, MASS, RColorBrewer, reshape, methods, plyr, R (>=
3.0.0)
ggplot2, MASS, RColorBrewer, reshape, methods, lavaan, R (>=
3.0.0)
ggplot2, RColorBrewer, reshape, lavaan, R (>= 3.0.0)
R (>= 2.13.0), MASS, tmvtnorm, Rcpp (>= 0.10.1), ff,
minpack.lm
bayesm, LearnBayes, SuppDists, mvtnorm, R (>= 2.12.2)
LearnBayes, SuppDists, mvtnorm, R (>= 2.12.2)
LearnBayes, SuppDists, mvtnorm, R (>= 3.1.3)
LearnBayes, SuppDists, mvtnorm, R (>= 3.2.3)
LearnBayes, SuppDists, mvtnorm, survival, R (>= 3.2.3)
R (>= 2.3.0), MASS, stats, mvtnorm, coda
R (>= 2.10.0), MASS, stats, mvtnorm, coda, gam, vcd
R (>= 2.11.0), MASS, stats, mvtnorm, coda, gam
R (>= 2.3.0), MASS, stats, mvtnorm, coda, gam
R (>= 2.14.1), stats, utils, graphics, grDevices, fftw (>=
1.0-3)
R (>= 2.14.1), utils, stats, graphics, grDevices
intamap, Rcpp (>= 0.8.0), RcppArmadillo (>= 0.2.0), doSNOW
intamap, Rcpp (>= 0.8.0), RcppArmadillo (>= 0.2.0)
R (>= 2.10.0), graphics, stats, methods, Formula, flexmix,
psychotools
R (>= 2.10.0), graphics, stats, methods, Formula (>= 1.1-0),
flexmix (>= 2.3-7), psychotools (>= 0.1-2)
R (>= 2.0.0), stats, party, strucchange, modeltools
R (>= 2.10.0), stats, psychotools, party, strucchange,
modeltools
psych, plyr, rtf, R2HTML, mokken, lavaan, semTools
R (>= 3.4.0), lattice, latticeExtra, stats
R (>= 3.5.0), lattice, latticeExtra, stats
R (>= 3.5.0), lattice, latticeExtra, tactile, stats
R (>= 3.6.0), emmeans, ggformula, magrittr, stats
R (>= 4.0.0), emmeans, ggformula, magrittr, stats
R (>= 3.5.0), emmeans, expss, ggformula, magrittr, stats
R (>= 4.0.0), emmeans, ggformula, gtsummary, huxtable,
magrittr, stats
R (>= 4.1.0), emmeans, ggformula, gtsummary, huxtable,
magrittr, stats
R (>= 3.5), awsMethods (>= 1.0), methods
R (>= 2.6.1), ncdf, gplots, XML, gdata, moments, boot
R (>= 2.6.1), ncdf4, gplots, XML, gdata, moments, boot, fields
R (>= 2.6.1), ncdf, gplots, XML, gdata, moments, boot, fields
R (>= 2.10), qcc, fda.usc, mvtnorm, qualityTools, MASS
R (>= 2.10), qcc, fda.usc, mvtnorm, MASS
R (>= 2.15), gdata, ggplot2 (>= 0.9.2), grid, scales
R (>= 2.15), gdata, ggplot2 (>= 0.9.2), grid, reports, scales
R (>= 3.0.0), gdata, ggplot2 (>= 0.9.3.1), grid, reports,
scales
R (>= 3.0.0), ggplot2 (>= 0.9.3.1), qdapDictionaries,
RColorBrewer
R (>= 3.0.0), ggplot2 (>= 0.9.3.1), qdapDictionaries (>=
1.0.1), qdapTools (>= 1.0.1), RColorBrewer
R (>= 3.0.0), ggplot2 (>= 0.9.3.1), qdapDictionaries (>=
1.0.2), qdapTools (>= 1.0.1), RColorBrewer
R (>= 3.1.0), ggplot2 (>= 0.9.3.1), qdapDictionaries (>=
1.0.2), qdapRegex (>= 0.1.2), qdapTools (>= 1.0.3),
RColorBrewer
R (>= 3.1.0), qdapDictionaries (>= 1.0.2), qdapRegex (>=
0.1.2), qdapTools (>= 1.0.3), RColorBrewer
R (>= 3.1.0), qdapDictionaries (>= 1.0.2), qdapRegex (>=
0.1.2), qdapTools (>= 1.3.1), RColorBrewer
ggplot2 (>= 2.5), grDevices, grid, gridExtra, R (>= 3.0),
stats (>= 3.0), survival
R (>= 1.11.0), sem, psych, RSVGTipsDevice
R (>= 2.0.0), MASS, rgenoud, gplots, gtools
R (>= 2.0.0), MASS, rgenoud, gplots, gtools, minpack.lm
R (>= 2.0.0), MASS, rgenoud, gplots, gtools, minpack.lm, rgl
R (>= 2.0.0), MASS, rgenoud, minpack.lm, rgl, cluster
R (>= 2.0.0), MASS, minpack.lm, rgl, cluster
R (>= 2.0.0), MASS, minpack.lm, rgl, cluster, nlme
R (>= 2.0.0), MASS, minpack.lm, rgl, cluster, nlme, minqa
R (>= 2.0.0), MASS, minpack.lm, rgl, robustbase
R (>= 2.13.0), MASS, minpack.lm, rgl, robustbase
R (>= 2.13.0), MASS, minpack.lm, rgl, robustbase, Matrix
ncdf, fields, clim.pact, akima, LatticeKrig, PrecipStat, R (>=
2.10.0)
ncdf, fields, clim.pact, akima, LatticeKrig, PrecipStat, evd,
R (>= 2.10.0)
xml2, rvest, tidyverse, dplyr, stringr, R (>= 2.10)
R (>= 4.1.0), lattice, latticeExtra, knitr, rmarkdown
R (>= 2.6), stats, graphics, grDevices, quantreg
R (>= 2.14.0), graphics, stats, parallel, utils
stats, qtl (>= 1.0.3), lattice, coda, tools, MASS
stats, qtl (>= 1.0.5), lattice, coda, tools, MASS
stats, qtl (>= 1.0.8), lattice, coda, tools, MASS
stats, qtl (>= 1.9.43), lattice, coda, tools, MASS
R (>= 2.10), stats, qtl (>= 1.9.43), lattice, coda, tools,
MASS
tiff, rgl, plot3D, graphics, grDevices, stats, utils
R (>= 2.10), stats, qtl, lattice, corpcor, mnormt
R (>= 2.10), qtl, igraph, sem, graph, pcalg
R(>= 2.15.0), graphics, methods, Rsolnp, MASS
Defaults, xts(>= 0.7-0), zoo, TTR(>= 0.2), methods
Defaults, xts(>= 0.7-5), zoo, TTR(>= 0.2), methods
Defaults, xts(>= 0.9-0), zoo, TTR(>= 0.2), methods
R (>= 2.10), quantreg, mnormt, fda, Rearrangement
R (>= 2.12.0), quantreg, rje, tcltk, zoo
R (>= 2.14.0), quantreg, rje, tcltk, zoo
R (>= 4.0.0), datasets, stats, utils, methods
R (>= 3.1.1), boot, DEoptim, dplyr, ggplot2, tidyr
R (>= 3.0.2), partykit, Formula, rpart, stats
R (>= 3.0.2), partykit, Formula, rpart, stats, grid, utils,
graphics
R (>= 3.0.0), stats, agricolae, stringr, pixmap, shiny, xtable
R (>= 2.10.0), tcltk, coda, gtools, maps
plyr, RCurl, reshape2, png, ggplot2 (>= 0.9.2.1), RJSONIO
R (>= 2.10.0), MASS, methods, Matrix, lattice
R (>= 3.0.2), sqldf, RSQLite, methods, utils, dplyr
R (>= 2.7.0), methods, stats, graph, proxy, cluster, MASS,
clusterGeneration
R (>= 2.7.0), methods, stats, proxy, cluster, MASS,
clusterGeneration
R (>= 2.10.0), methods, stats, proxy, cluster, MASS,
clusterGeneration, igraph
R (>= 2.10.0), methods, stats, proxy (>= 0.4-7), cluster,
MASS, clusterGeneration, igraph
R (>= 2.10.0), methods, stats, proxy (>= 0.4-7), cluster,
MASS, clusterGeneration, igraph0
R (>= 2.10.0), methods, stats, proxy (>= 0.4-7), MASS,
clusterGeneration, igraph
RJSONIO, XML, reshape2, RCurl (>= 1.6), stringr, plyr
R (>= 3.6.0), data.table, mltools, reticulate
R (>= 2.13.0), rjson, RCurl, seqinr, knitcitations
R (>= 2.10.0), mvtnorm, stats, ssanv, parallel
R (>= 3.3.0), radiant.data (>= 0.6.0), radiant.design (>=
0.6.0), radiant.basics (>= 0.6.0), radiant.model (>= 0.6.0),
radiant.multivariate (>= 0.6.0)
R (>= 3.3.0), radiant.data (>= 0.8.1), radiant.design (>=
0.8.0), radiant.basics (>= 0.8.0), radiant.model (>= 0.8.0),
radiant.multivariate (>= 0.8.0)
R (>= 3.4.0), radiant.data (>= 0.9.5), radiant.design (>=
0.9.5), radiant.basics (>= 0.9.5), radiant.model (>= 0.9.5),
radiant.multivariate (>= 0.9.5)
R (>= 3.4.0), radiant.data (>= 0.9.7), radiant.design (>=
0.9.7), radiant.basics (>= 0.9.7), radiant.model (>= 0.9.7),
radiant.multivariate (>= 0.9.7)
R (>= 3.4.0), radiant.data (>= 0.9.9), radiant.design (>=
0.9.9), radiant.basics (>= 0.9.9), radiant.model (>= 0.9.9),
radiant.multivariate (>= 0.9.9.1)
R (>= 3.4.0), radiant.data (>= 0.9.9), radiant.design (>=
0.9.9), radiant.basics (>= 0.9.9), radiant.model (>= 0.9.9),
radiant.multivariate (>= 0.9.9)
R (>= 3.4.0), radiant.data (>= 1.3.0), radiant.design (>=
1.3.0), radiant.basics (>= 1.3.0), radiant.model (>= 1.3.0),
radiant.multivariate (>= 1.3.0)
R (>= 3.6.0), radiant.data (>= 1.3.0), radiant.design (>=
1.3.0), radiant.basics (>= 1.3.0), radiant.model (>= 1.3.0),
radiant.multivariate (>= 1.3.0)
R (>= 3.6.0), radiant.data (>= 1.4.1), radiant.design (>=
1.4.1), radiant.basics (>= 1.4.1), radiant.model (>= 1.4.2),
radiant.multivariate (>= 1.4.1)
R (>= 3.6.0), radiant.data (>= 1.4.4), radiant.design (>=
1.4.4), radiant.basics (>= 1.4.4), radiant.model (>= 1.4.6),
radiant.multivariate (>= 1.4.4)
R (>= 3.3.0), radiant.data (>= 0.6), mvtnorm
stats, expm, GeneNet, reshape, ggplot2, igraph
R (>= 2.15.1), rags2ridges (>= 2.0), gRbase, igraph
R (>= 2.15.1), gRbase, igraph, rags2ridges,
R (>= 2.6.0), hdrcde, MASS, pcaPP, cluster
R (>= 2.6.0), hdrcde, ks, MASS, pcaPP, cluster
R (>= 2.10.0), hdrcde, MASS, pcaPP, cluster
R (>= 2.10.0), hdrcde, MASS, pcaPP, cluster, colorspace
R (>= 2.5.1), coda, fields, Matrix (>= 0.999375-10), maps,
methods, nlme
R (>= 2.5.1), coda, fields, Matrix (>= 0.999375-10), maps, methods, nlme
foreach, doParallel, methods, parallel, stats
psych, nFactors, mvtnorm, MASS, boot, lattice, polycor,
sfsmisc
R (>= 2.14.0), MASS, gtools, foreach, doParallel
R (>= 2.14.0), MASS, foreach, doParallel
R (>= 4.0.0), MASS, foreach, doParallel,
R(>= 2.15.1), lattice, nlme, boot, utils
R(>= 3.0.0), lattice, boot, fastGHQuad, Matrix
R (>= 3.6.0), methods, ggplot2, plotrix, survival
R (>= 2.10.0), utils, tcltk, tcltk2, RSQLite, sp, rgdal,
maptools, lattice, RColorBrewer, pixmap
R (>= 2.10.0), utils, RSQLite, sp, rgdal, maptools, lattice,
RColorBrewer
R (>= 2.10.0), utils, RSQLite, sp, rgdal, maptools, lattice,
RColorBrewer, tcltk, tcltk2, pixmap, classInt
R (>= 2.10.0), methods, utils, RSQLite,RSQLite.extfuns, sp,
rgdal, maptools, lattice, RColorBrewer, tcltk, tcltk2, pixmap,
classInt
R (>= 2.14.0), methods, utils, RSQLite,RSQLite.extfuns, sp,
rgdal, maptools, lattice, RColorBrewer, tcltk, tcltk2, pixmap,
classInt
R (>= 2.15.0), methods, utils, RSQLite, rgdal
R (>= 3.0.0), methods, utils, RSQLite, rgdal
R (>= 3.0.0), methods, utils, RSQLite (>= 1.0.0), rgdal
ascii, evaluate, lattice, latticeExtra, moments, RColorBrewer,
reshape, RJSONIO
R (>= 2.14.0), ascii, evaluate, lattice, RColorBrewer,
reshape, RJSONIO
R (>= 2.14.0), grDevices, ascii, evaluate, lattice,
RColorBrewer, reshape
R (>= 2.15.0), lattice, plyr, pander, yaml
R (>= 2.14.0), methods, grDevices, stats, ape (>= 3.1-0),
methods, raster(>= 1.8-34), lattice, latticeExtra, hexbin
methods, raster(>= 2.0-12), lattice, latticeExtra, hexbin
R (>= 2.14.0), methods, raster (>= 2.0-12), lattice,
latticeExtra, hexbin
R (>= 2.14.0), methods, raster (>= 2.0-12), lattice,
latticeExtra
R (>= 2.14.0), methods, raster (>= 2.0-12), terra, lattice (>=
0.20-41), latticeExtra
R (>= 3.2), tools, h5 (>= 0.9), xts, dygraphs, shiny, methods
R (>= 3.2), h5 (>= 0.9), data.table, xts, dygraphs, shiny,
methods
R (>= 3.2), hdf5r (>= 1.0), data.table, xts, dygraphs, shiny,
methods
R (>= 2.11.0), rJava, rcdklibs, fingerprint, methods, png
R (>= 2.0.0), rJava, rcdklibs, fingerprint, methods
R (>= 2.11.0), rJava, rcdklibs, fingerprint, methods, png,
iterators
R (>= 2.11.0), rJava, rcdklibs (>= 1.5.0), fingerprint,
methods, png, iterators
R (>= 2.11.0), rJava, rcdklibs (>= 1.5.0.3), fingerprint,
methods, png, iterators
R (>= 2.15.0), sandwich, lmtest, AER, Formula
R (>= 3.0.1), gplots, zoo, methods, MatrixEQTL
R (>= 2.10), grDevices, graphics, stats, utils, NCmisc
ape, vegan, picante, cluster, phangorn, phytools
R (>= 2.8.0), methods, Matrix, registry, arules (>= 1.0-1),
cluster, proxy
R (>= 2.10.0), methods, Matrix, registry, arules (>= 1.0-1),
cluster, proxy
R (>= 2.10.0), methods, Matrix, registry, arules (>= 1.0-1),
proxy
R (>= 2.10.0), Matrix, registry, arules (>= 1.0-1), proxy
R (>= 2.10.0), Matrix, arules, proxy, registry
R (>= 3.5.0), Matrix, arules, proxy, registry
R (>= 3.5.0), Matrix, arules, proxy (>= 0.4-26), registry
R (>= 2.9.0), mgcv (>= 1.7-8), fda, MASS, glmnet, magic, nlme,
wavethresh, Matrix, gamm4
R (>= 2.14.0), mgcv (>= 1.7-8), fda, MASS, glmnet, magic,
nlme, wavethresh, Matrix, gamm4, boot
R (>= 3.2.1), bestglm, leaps, VGAM, rpart, randomForest
R (>= 3.6), bestglm, leaps, VGAM, rpart, randomForest
R (>= 2.14.0), methods, mvtnorm, boot, Matrix
R (>= 3.6.0), methods, graphics, glasso, igraph
R (>= 2.2), data.table, dplyr, viridis, viridisLite, ggplot2,
methods
R (>= 2.14.0), graphics, grDevices, stats, utils
R (>= 3.0), Familias, paramlink (>= 0.9-7)
R(>= 2.2.1), MASS, boot, survey, methods, mitools
R(>= 2.2.1), MASS, boot, survey, mitools, graphics
R(>= 2.2.1), MASS, boot, survey, methods, mitools, corpcor
R (>= 3.6.0), RUnit, clusterGeneration, ggplot2, grid,
reshape2, methods
R (>= 2.10), Rcpp (>= 0.10.3), raster, foreach, methods
clim.pact, cyclones, waveslim, lmtest, deSolve, R (>= 2.10)
R (>= 2.15.1), randomForest, parallel, ggplot2, gridExtra
Rcpp (>= 0.8.0), RcppArmadillo (>= 0.2.1), stats
R (>= 2.2.0), methods, sp, abind, pixmap
R (>= 2.2.1), methods, sp, abind, pixmap
R(>= 3.1.0), digest, jsonlite, RCurl, httr
R(>= 4.0), digest, jsonlite, RCurl, httr, plyr
R (>= 3.4.0), methods, grDevices, stats, utils
R (>= 2.8.1), rimage, tcltk, tkrplot, e1071, rggobi, reshape,
methods
spatstat, deldir (>= 0.0-19), gWidgets, gWidgetsRGtk2
MASS, quantreg, nlme, mgcv, magic, stringr
R (>= 3.0.0), methods, Rcpp, RcppArmadillo, rugarch
R (>= 3.0.2), methods, rugarch, parallel
R (>= 3.0.2), methods, rugarch (>= 1.4-7), parallel
nnet, kknn, kernlab, rpart, lattice, methods
nnet, kknn, kernlab, rpart, lattice, plotrix, methods
nnet, kknn, kernlab, rpart, grDevices, graphics, plotrix,
lattice, methods
Hmisc (>= 3.12-2), survival (>= 2.37-6), lattice, SparseM
Hmisc (>= 3.15-0), survival (>= 2.37-6), lattice, ggplot2,
gridExtra, SparseM
Hmisc (>= 3.15-1), survival (>= 2.37-6), lattice, ggplot2,
SparseM
Hmisc (>= 3.17-1), survival (>= 2.37-6), lattice, ggplot2,
SparseM
Hmisc (>= 3.17-3), survival (>= 2.37-6), lattice, ggplot2 (>=
2.0), SparseM
Hmisc (>= 4.0-0), survival (>= 2.40-1), lattice, ggplot2 (>=
2.0), SparseM
Hmisc (>= 4.0-0), survival (>= 2.40-1), lattice, ggplot2 (>=
2.2), SparseM
Hmisc (>= 4.0-2), survival (>= 2.40-1), lattice, ggplot2 (>=
2.2), SparseM
Hmisc (>= 4.1-0), survival (>= 2.40-1), lattice, ggplot2 (>=
2.2), SparseM
Hmisc (>= 4.1-1), survival (>= 2.40-1), lattice, ggplot2 (>=
2.2), SparseM
R (>= 2.10.0), methods, XMLRPC, RCurl, XML, stats
R (>= 2.10.0), methods, RCurl, XML, stats
utils, e1071, robustbase, compositions, car, MASS
utils, robustbase, car, e1071, MASS, compositions
R (>= 2.0.0), utils, robustbase, rrcov, car (>= 2.0-0), MASS
R (>= 2.10), utils, robustbase, rrcov, car (>= 2.0-0), MASS
R (>= 2.10), utils, robustbase, rrcov, car (>= 2.0-0), MASS,
pls
R (>= 2.10), utils, robustbase, rrcov, GGally, MASS, pls
R (>= 2.10), robustbase, ggplot2, data.table, pls
R (>= 3.0.0), robustbase, ggplot2, data.table, e1071, pls
R (>= 2.6.0), MASS, lattice, robustbase, rrcov, stats
R (>= 2.15.0), MASS, lattice, robustbase, rrcov, stats
R (>= 2.6.0), MASS, lattice, robustbase, rrcov
R (>= 2.15.0), fit.models, MASS, lattice, robustbase, rrcov
fit.models, MASS, lattice, robustbase, rrcov, stats
Rcpp (>= 0.9.10), cvTools (>= 0.3.0), lattice, MASS,
robustbase (>= 0.6-0)
methods, robustbase, pcaPP, mvtnorm, rrcov
methods, robustbase, pcaPP, mvtnorm, rrcov, R (>= 2.15.0)
nlme, methods, lme4, Matrix, MatrixModels, robustbase (>=
0.9.5), stats4
nlme, methods, lme4, Matrix (>= 1.0-13), robustbase (>=
0.9.5),
R(>= 3.1.0), MCMCpack, coda, lattice, mvtnorm, pscl
R (>= 2.10), ggplot2, Rcpp, RcppArmadillo
R (>= 3.0), ggplot2, Rcpp, RcppArmadillo
R (>= 2.9.0),methods,roxygen2,tools,XiMpLe (>= 0.03-12)
survival4 if survival models are to be used.
survival5 if survival models are to be used.
R (>= 0.99), survival5 if survival models are to be used.
R (>= 2.4.0), graphics, stats, grDevices
R (>= 2.7.0), graphics, stats, grDevices
R (>= 2.10.1), graphics, stats, grDevices
R (>= 2.12.0), graphics, stats, grDevices
R (>= 2.15.0), graphics, stats, grDevices
R(>= 3.1.0), dplyr (>= 0.2), RSQLite, RSQLite.extfuns
R (>= 3.3.0), DBI, RPostgreSQL, rpostgis (>= 1.0.3),
adehabitatLT (>= 0.3.12)
rrcov (>= 1.3-7), robustbase (>= 0.92-1), methods
R (>= 3.1.2), registry, proxy, MASS, stats
R (>= 3.1.2), registry, proxy, MASS, stats, knitr
R (>= 3.1.2), registry, MASS, stats, knitr, ggplot2
R(>= 2.11.0), BRugs, methods, tcltk, tkrplot
R(>= 2.11.0), mc2d, eha, msm, tcltk, tkrplot
R (>= 2.14.2), biwt, fBasics, snowfall, grDevices, gplots,
gWidgets, gWidgetsRGtk2, stringr
R (>= 2.15.0), biwt, cairoDevice, fBasics, snowfall,
grDevices, gplots, gWidgets, gWidgetsRGtk2, stringr
R (>= 2.15.1), biwt, cairoDevice, fBasics, grDevices, gplots,
gWidgets, gWidgetsRGtk2, parmigene, stringr, snowfall
R (>= 2.15.1), bigmemory, biwt, cairoDevice, ctc, fBasics,
grDevices, gplots, gWidgets, gWidgetsRGtk2, minerva, parmigene,
stringr, snowfall
R (>= 2.15.1), biwt, cairoDevice, fBasics, grDevices, gplots,
gWidgets, gWidgetsRGtk2, minerva, parmigene, stringr, snowfall
R (>= 2.14.2), biwt, ctc, fBasics, snowfall, grDevices,
gplots, gWidgets, gWidgetsRGtk2, stringr
R (>= 3.0.2), Rcpp (>= 0.11.0), utils, inline, methods
R (>= 3.0.2), methods, survival, splines
methods, magrittr, formatters (>= 0.2.0), R (>= 2.10)
methods, magrittr, formatters (>= 0.3.0), R (>= 2.10)
methods, sp (>= 1.0-13), raster, xts, zoo
methods, sp (>= 1.2-0), R (>= 3.0.0), raster, xts, zoo, RCurl
R (>= 2.10.0), Rcpp (>= 0.8.5), RcppArmadillo (>= 0.2.5),
methods, numDeriv, chron, Rsolnp
R (>= 2.10.0), Rcpp (>= 0.8.5), RcppArmadillo, methods,
numDeriv, chron, Rsolnp
R (>= 2.10.0), Rcpp, RcppArmadillo, methods, parallel,
numDeriv, chron, Rsolnp
R (>= 3.0.0), Rcpp, RcppArmadillo, methods, parallel, zoo,
xts, numDeriv, Rsolnp
R (>= 3.0.0), Rcpp, RcppArmadillo, methods
R (>= 2.13), coda, lattice, stats, utils
R(>= 2.8.1), stats, utils, grDevices, graphics
R(>= 2.10.0), stats, utils, grDevices, graphics
R(>= 2.15.1), stats, utils, grDevices, graphics, parallel
R(>= 2.15.1), stats, utils, grDevices, graphics
R (>= 2.10), raster, Matrix, mvtnorm, MASS
R (>= 2.7.0), sp, maptools, foreign, fields, spam, maps
R (>= 2.10.0), sp, maptools, foreign, fields, spam, maps
R (>= 2.10.0), sp, maptools, foreign, fields, spam
R (>= 2.14.1), GEOmap, geomapdata, maps, mapproj
R6, httr, resourcer (>= 1.2), aws.s3, sparklyr
graphics, grDevices, stats, utils, lattice
R (>= 2.7), Matrix, doParallel, elasticnet, foreach, mvtnorm
R (>= 4.1.0), dplyr, rlang, cluster, signal, tidyr
R (>= 3.1), TeachingSampling, timeDate, dplyr, magrittr
R (>= 2.10), raster, Rcpp (>= 0.10.3), methods, utils, stats,
grDevices, graphics
R (>= 2.10), raster, methods, utils, stats, grDevices,
graphics
hdf5, maptools, maps, PBSmapping, chron, plotrix
neldermead, optimsimplex, optimbase, lattice, deSolve,
PBSddesolve
neldermead, optimsimplex, optimbase, lattice, grid, deSolve,
PBSddesolve, utils
neldermead, optimsimplex, optimbase, lattice, grid, deSolve,
utils
neldermead (>= 1.0-8), lattice, grid, deSolve, utils
neldermead (>= 1.0-8), optimsimplex (>= 1.0-5), optimbase (>=
1.0-8)
R (>= 2.1.1), gdata, grid, Hmisc, lattice
R (>= 2.1.1), coda, gdata, gplots, gtools, lattice
R (>= 2.1.1), coda, gdata, gplots, grid, gtools, lattice
R(>= 2.10), FKF(>= 0.1.0), mvtnorm, methods, RUnit
R (>= 2.10), stats, Matrix, RandomFields, interp
cvxclustr, mclust, gglasso, Matrix, igraph
methods, stats, dplyr, ggplot2, R (>= 2.10)
car, robustbase, tcltk, cluster, MASS, far, e1071, mclust
car, robustbase, tcltk, cluster, MASS, far, e1071, mclust,
gWidgetsRGtk2
car, robustbase, tcltk, cluster, MASS, e1071, mclust,
gWidgetsRGtk2
robustbase, gWidgetsRGtk2, tcltk, car, cluster, MASS, e1071,
mclust
robustbase, tcltk, car, cluster, MASS, e1071
R (>= 2.10), robustbase, Rcpp, car, cluster, MASS, e1071,tcltk
R (>= 2.10), brew, knitr,data.table,xtable
sdcMicro (>= 3.1.2), gWidgetsRGtk2, tcltk, cairoDevice,vcd
sdcMicro (>= 4.0.2), gWidgetsRGtk2, tcltk, cairoDevice, vcd,
foreign, Hmisc
sdcMicro (>= 4.0.3), gWidgetsRGtk2, tcltk, cairoDevice, vcd,
foreign, Hmisc
sdcMicro (>= 4.0.0), gWidgetsRGtk2, tcltk, cairoDevice, vcd,
foreign, Hmisc
sdcMicro (>= 4.1.0), gWidgetsRGtk2, tcltk, cairoDevice
sdcMicro (>= 4.5.0), gWidgetsRGtk2,gWidgets, tcltk,
cairoDevice
sdcMicro (< 5.0.0), gWidgetsRGtk2,gWidgets, tcltk, cairoDevice
stringr, methods, Rcpp, Rglpk, lpSolveAPI
stringr, methods, Rcpp, Rglpk, lpSolveAPI, data.table
stringr, methods, Rcpp (>= 0.11.0), Rglpk, lpSolveAPI,
data.table
stringr, methods, Rcpp (>= 0.11.0), Rglpk, lpSolveAPI
stringr, methods, Rcpp (>= 0.11.0), Rglpk, slam, lpSolveAPI
R (>= 2.10), stringr, methods, Rcpp (>= 0.11.0), Rglpk, slam,
lpSolveAPI
R (>= 2.10.0), methods, magic, foreach, parallel, doParallel,
tuple (>= 0.4-02)
R (>= 2.8.0), lattice, MASS, mgcv, survival, coda
R (>= 2.10.0), lattice, MASS, mgcv, survival, coda
R (>= 2.13.0), lattice, MASS, mgcv, survival, coda
R (>= 3.0.1), ggplot2 (>= 0.9.3), MASS, mgcv, survival, coda
R (>= 2.15.3), survival, NADA, lubridate
R (>= 3.0.0), survival, rms, lubridate, reshape2, plyr
R (>= 3.5.0), quanteda (> 2.0), methods, proxyC
rpanel, tcltk, tkrplot, stats, graphics, grDevices
rpanel, tcltk, stats, graphics, grDevices
R (>= 2.10.0), methods, sp, spatstat, raster
R (>= 2.10.0), methods, stats, sp, raster, spatstat (>=
1.27.0)
glmnet, intervals, survival, R (>= 3.4.0)
glmnet, intervals, survival, adaptMCMC, MASS
R (>= 2.14.0), sem, stats, MASS, matrixcalc
R(>= 3.0), methods, lavaan(>= 0.5-20), utils, stats, graphics
R(>= 3.0), methods, lavaan(>= 0.5-22), utils, stats, graphics
R(>= 3.0), methods, lavaan(>= 0.5-18), utils, stats, graphics
R(>= 3.3), utils, stats, graphics, lavaan(>= 0.6.1)
R(>= 3.4), utils, stats, graphics, lavaan(>= 0.6.3)
R(>= 3.4), utils, stats, graphics, lavaan(>= 0.6-5)
R(>= 3.4), utils, stats, graphics, lavaan(>= 0.6-6)
R(>= 3.4), utils, stats, graphics, lavaan(>= 0.6-7)
R (>= 3.0.0), stats, MASS, lavaan, methods
R (>= 3.0.0), methods, gstat, sp, raster
R (>= 3.4.2), data.table, ggplot2, foreach
R (>= 3.3.0), data.table, ggplot2, foreach
R (>= 2.10), Matrix, coxme, survival, CompQuadForm
R (>= 2.15.1), copynumber, parallel, squash
R (>= 3.0.0), copynumber, parallel, squash
stats, cluster, TSP, gclus, grid, colorspace
R (>= 2.10.0), stats, cluster, TSP, gclus, grid, colorspace
R (>= 2.14.0), stats, cluster, TSP, gclus, grid, colorspace
R (>= 3.1.0), Matrix, truncnorm, splines, MASS
R (>= 3.1.0), Matrix, truncnorm, splines
R (>= 3.5.0), Matrix, truncnorm, splines
stats, grDevices, graphics, R (>= 2.0.0)
R (>= 3.0.0), Matrix, foreach, doParallel
R (>= 3.2.5), Matrix, foreach, doParallel
R (>= 3.2.4), Matrix, foreach, doParallel
R (>= 3.0.2), stats, poibin, prot2D, discreteMTP
R (>= 2.0.1), KernSmooth, stats, quadprog
R (>= 3.5.0), KernSmooth, stats, quadprog
R (>= 2.11), boot, KernSmooth, modeltools (>= 0.2-9)
sysfonts (>= 0.7.1), showtextdb (>= 2.0)
hdrcde, coda, MASS, bayesm, mnormt, spatstat
MASS, corpcor, mmap, ade4, minet, infotheo
R (>= 2.10), MASS, corpcor, mmap, ade4, minet, infotheo
R (>= 2.10), MASS, corpcor, mmap, ade4, infotheo
R (>= 2.10.0), stats, graphics, grDevices, MASS
R (>= 2.14.0), stats, graphics, grDevices, MASS
base, graphics, stats, lme4, sp, raster, rgdal
R (>= 2.15.2), stats, hapsim, MASS, stringr
R (>= 2.15.2), stats, hapsim, MASS, stringr, readr
R (>= 3.0.0), doParallel, utils, foreach, parallel, stats
R (>= 2.5.0), stats, vegan, gplots, geoR, plotrix
R (>= 3.3.0), stats, Matrix, dplyr, purrr, tidyr, tibble
R (>= 2.15.2), stats, graphics, parallel
R(>= 3.3), methods, lavaan(>= 0.6.1), utils, stats, graphics
R(>= 3.4), methods, lavaan(>= 0.6-7), utils, stats, graphics
R (>= 3.4), pracma, arrangements, matrixStats, igraph,
graphics, grDevices, crqa
R (>= 3.4), arrangements, matrixStats, igraph, graphics,
grDevices
R (>= 2.15.0), MASS, combinat, pbivnorm, mvtnorm, sfsmisc,
Rcpp (>= 0.10.3), RcppArmadillo (>= 0.3.800.1)
R (>= 2.15.0), MASS, combinat, pbivnorm, mvtnorm, sfsmisc,
Rcpp (>= 0.10.3), RcppArmadillo (>= 0.3.800.1), TAM, CDM
R (>= 2.15.0), MASS, coda, mvtnorm, gregmisc
R (>= 2.7.0), annotate, ash, Biobase, coda, ellipse, gclus,
gdata, geneplotter, gplots, gtools, hdrcde, moments, mvtnorm,
polyapost, rcdd, RColorBrewer, stats, sm
R (>= 3.1.0), data.table, methods, lattice, latticeExtra
R (>= 3.1), graphics, grDevices, stats, utils
R (>= 3.1), graphics, grDevices, methods, stats, utils
R (>= 3.2), graphics, grDevices, methods, stats, utils
R (>= 3.3), graphics, grDevices, methods, stats, utils
R (>= 3.2), graphics, grDevices, stats, utils
R (>= 3.2.0), igraph, shiny (>= 0.13.0), shinyFiles
R (>= 3.4.0), igraph, shiny (>= 0.13.0), shinyFiles
R (>= 2.12.0), sets, relations, grid, DAKS, plyr
R (>= 2.10), FitAR, timeSeries, lubridate
R (>= 2.7.0), polynom, rgl, scatterplot3d
R (>= 2.8.0), polynom, rgl, scatterplot3d
R (>= 2.13.0), polynom, rgl, scatterplot3d, Hmisc, colorspace
R (>= 3.0.2), polynom, rgl, scatterplot3d, Hmisc, colorspace
R (>= 3.5.0), plotrix, colorspace, e1071
R (>= 2.10), huge, gplots, mvtnorm, PMA, elasticnet, pcaPP
R (>= 4.1.0), stats, spdep, pracma, scales, truncnorm
R (>= 3.6.0),methods,graphics, grDevices, stats, utils
R (>= 3.5.0),methods,graphics, grDevices, stats, utils
ParamHelpers (>= 1.3), BBmisc (>= 1.6), checkmate (>= 1.1)
ParamHelpers (>= 1.8), BBmisc (>= 1.6), checkmate (>= 1.1)
ParamHelpers (>= 1.8), checkmate (>= 1.1)
doParallel, foreach, parallel, methods, stats
doParallel, foreach, parallel, methods, iterators, stats
R (>= 2.15.3), methods, mnormt, numDeriv, stats4
R (>= 2.0.0), utils, statnet.common, network
Matrix, matrixcalc, stringr, rgl, impute
svUnit, methods, arrayhelpers (>= 0.75-20120202)
R (>= 3.0), KernSmooth, car, class, e1071, hexView, gbm,
lattice, pls, splines, survival, wavelets
R (>= 2.9.0), methods, plyr, Hmisc, RODBC, RCurl, XML, SSOAP,
aqp
R (>= 2.9.0), methods, plyr, Hmisc, RODBC, aqp
graphics, nloptr(>= 1.2.1), snowfall, stats, utils
R (>= 2.15), rpanel, MASS, tcltk, tkrplot
R (>= 2.14.1), aqp, lattice, munsell, splancs, methods
R (>= 2.10), methods, lattice, latticeExtra, zoo
R (>= 2.10), methods, zoo, lattice, latticeExtra
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS,
matrixcalc
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS,
matrixcalc, beepr
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS, lme4,
foreach,
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS,
parallel, lme4
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS, parallel
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS, lattice
R (>= 2.10), Matrix (>= 1.1.1), methods, stats, MASS, lattice,
crayon
R (>= 3.5.0), Matrix (>= 1.1.1), methods, stats, MASS,
lattice, crayon
R (>= 3.4.0), ggplot2, data.table, kohonen, maps
R (>= 3.0.1), methods, pxR, RCurl, rjson, sp, spdep
R (>= 2.11.1), XML, RCurl (>= 1.4-1), sp, methods, graphics
R (>= 2.14.0), XML, RCurl (>= 1.4-1), sp, methods, graphics
R (>= 2.15.0), XML, RCurl (>= 1.4-1), sp, methods, graphics
R (>= 2.11.1), XML, RCurl (>= 1.4-1), sp, methods, graphics,
xtable
R (>= 3.4.0), dplyr, tensorA, assertthat
R (>= 2.10), stats, utils, graphics, geoR, shiny
R (>= 1.8.0), coda, magic, lattice, abind
R (>= 1.8.0), coda, magic, abind, Formula
R (>= 1.8.0), coda, magic, abind, Formula, Matrix
R (>= 2.14.0), maptools, XML, RgoogleMaps, PBSmapping
R (>= 2.14.1), base, methods, datasets, utils, grDevices,
graphics, stats
R (>= 2.14.2), base, methods, datasets, utils, grDevices,
graphics, stats
R (>= 2.15.0), base, methods, datasets, utils, grDevices,
graphics, stats
R (>= 3.0.0), base, methods, datasets, utils, grDevices,
graphics, stats
R (>= 2.14.0), coda, spacetime, forecast
R (>= 2.14.0), coda, forecast (>= 3.0.2), spacetime
methods, R (>= 2.10-0), spdep, foreach, lme4
methods, R (>= 2.10-0), spdep, foreach, lme4, boot
methods, R (>= 2.14-0), spdep, foreach, lme4, boot, iterators
R (>= 3.5.0), spatstat.geom, spatstat.core, spatstat.linnet,
spatstat.random, spatstat (>= 2.0-0)
utils, methods, Cairo, gridExtra, ggplot2,shiny, Rglpk
graphics, xtable, utils, grid, Cairo, methods, Rglpk,
StatMatch
graphics, xtable, utils, grid, Cairo, methods, Rglpk,
StatMatch,gridExtra,RGraphics,ggplot2,pixmap
Rcpp (>= 0.9.6), RcppEigen (>= 0.3.1), Matrix, methods
lars, elasticnet, MASS, mda, R (>= 2.10)
R (>= 3.2.3), sparsebnUtils, ccdrAlgorithm,
discretecdAlgorithm
R (>= 3.2.3), sparsebnUtils (>= 0.0.3), ccdrAlgorithm (>=
0.0.2), discretecdAlgorithm (>= 0.0.2)
R (>= 3.2.3), sparsebnUtils (>= 0.0.4), ccdrAlgorithm (>=
0.0.3), discretecdAlgorithm (>= 0.0.3)
R (>= 3.2.3), sparsebnUtils (>= 0.0.5), ccdrAlgorithm (>=
0.0.4), discretecdAlgorithm (>= 0.0.5)
raster, rgdal, sp, mmap, abind, parallel, foreach, doParallel,
R (>= 2.15.2)
raster, rgdal, sp, mmap, abind, parallel, foreach, doParallel,
rgeos, R (>= 2.15.3)
parallel, iterators, foreach, rgdal, raster, R (>= 3.0.2)
parallel, iterators, foreach, rgdal, raster, R (>= 2.14.0)
parallel, iterators, foreach, rgdal, raster, R (>= 3.0.0)
R (>= 3.0.1), cubature, mvtnorm, SpatialExtremes
R (>= 1.9.0), Matrix, akima, mvtnorm, tmvtnorm
R (>= 1.9.0), Matrix, spdep, mvtnorm, tmvtnorm
R (>= 1.9.0), Matrix, spdep, akima, mvtnorm, tmvtnorm
R (>= 1.9.0), Matrix, spdep (>= 1.1-1), spatialreg (>= 1.1-1),
mvtnorm, tmvtnorm
R (>= 2.6.0), stats, graphics, mgcv, gpclib
R (>= 2.6.0), stats, graphics, mgcv, gpclib, deldir
R (>= 2.6.0), stats, graphics, mgcv, gpclib, deldir (>= 0.0-7)
R (>= 2.7.0), stats, graphics, utils, mgcv, gpclib, deldir (>= 0.0-7)
R (>= 2.6.0), stats, graphics, utils, mgcv, gpclib, deldir (>= 0.0-7)
R (>= 2.7.0), stats, graphics, utils, mgcv, gpclib, deldir (>=
0.0-7)
R (>= 2.9.0), stats, graphics, utils, mgcv, gpclib, deldir (>=
0.0-7)
R (>= 2.10.0), stats, graphics, utils, mgcv, deldir (>= 0.0-7)
R (>= 2.10.0), stats, graphics, utils, mgcv, deldir (>=
0.0-10)
R (>= 2.11.0), stats, graphics, utils, mgcv, deldir (>=
0.0-10)
R (>= 2.10.0), stats, graphics, utils, mgcv, deldir (>=
0.0-10), RandomFields (>= 2.0)
R (>= 2.13.0), stats, graphics, utils, mgcv, deldir (>=
0.0-10), RandomFields (>= 2.0)
R (>= 2.13.0), stats, graphics, utils, mgcv, deldir (>=
0.0-10)
R (>= 2.14.0), stats, graphics, utils, mgcv, deldir (>=
0.0-10)
R (>= 2.14.0), stats, graphics, utils, mgcv, deldir (>=
0.0-21)
R (>= 2.14.0), stats, graphics, grDevices, utils, mgcv, deldir
(>= 0.0-21)
R (>= 3.0.0), stats, graphics, grDevices, utils, mgcv, deldir
(>= 0.0-21)
R (>= 3.0.2), stats, graphics, grDevices, utils, mgcv, deldir
(>= 0.0-21), abind, tensor, polyclip
R (>= 3.0.2), stats, graphics, grDevices, utils, mgcv, deldir
(>= 0.0-21), abind, tensor, polyclip (>= 1.2-0)
R (>= 3.0.2), stats, graphics, grDevices, utils
R (>= 3.1.1), stats, graphics, grDevices, utils
R (>= 3.2.0), stats, graphics, grDevices, utils
R (>= 3.2.0), stats, graphics, grDevices, utils, methods
R (>= 3.2.2), stats, graphics, grDevices, utils, methods, nlme
R (>= 3.2.2), stats, graphics, grDevices, utils, methods,
nlme, rpart
R (>= 3.3.0), stats, graphics, grDevices, utils, methods,
nlme, rpart
R (>= 3.3.0), spatstat.data (>= 1.1-0), stats, graphics,
grDevices, utils, methods, nlme, rpart
R (>= 3.3.0), spatstat.data (>= 1.2-0), stats, graphics,
grDevices, utils, methods, nlme, rpart
R (>= 3.3.0), spatstat.data (>= 1.3-0), stats, graphics,
grDevices, utils, methods, nlme, rpart
R (>= 3.3.0), spatstat.data (>= 1.4-0), stats, graphics,
grDevices, utils, methods, nlme, rpart
R (>= 3.3.0), spatstat.data (>= 1.4-2), stats, graphics,
grDevices, utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.0-1), spatstat.core (>= 2.0-0), spatstat.linnet (>= 2.1-1),
utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.2-0), spatstat.core (>= 2.2-0), spatstat.linnet (>= 2.2-0),
utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.3-0), spatstat.core (>= 2.3-0), spatstat.linnet (>= 2.3-0),
utils
R (>= 3.5.0), spatstat.data (>= 2.1-2), spatstat.geom (>=
2.3-2), spatstat.random (>= 2.1-0), spatstat.core (>= 2.4-0),
spatstat.linnet (>= 2.3-2), utils
R (>= 3.5.0), spatstat.data (>= 2.1-2), spatstat.geom (>=
2.4-0), spatstat.random (>= 2.2-0), spatstat.core (>= 2.4-1),
spatstat.linnet (>= 2.3-2), utils
R (>= 3.5.0), spatstat.data (>= 3.0), spatstat.geom (>= 3.0),
spatstat.random (>= 3.0), spatstat.explore (>= 3.0),
spatstat.model (>= 3.0), spatstat.linnet (>= 3.0), utils
R (>= 3.5.0), spatstat.data, spatstat.sparse, spatstat.geom
(>= 1.65-0), spatstat.core (>= 1.65-0), spatstat.linnet (>=
1.65-0)
R (>= 3.5.0), spatstat.data (>= 2.0), spatstat.sparse (>=
2.0), spatstat.geom (>= 2.0), spatstat.core (>= 2.0),
spatstat.linnet (>= 2.0)
R (>= 3.5.0), spatstat.data (>= 2.0), spatstat.sparse (>=
2.0), spatstat.geom (>= 2.0), spatstat.random (>= 2.0),
spatstat.core (>= 2.3-2), spatstat.linnet (>= 2.3-1), spatstat
(>= 2.0)
R (>= 3.5.0), spatstat.data (>= 3.0), spatstat.sparse (>=
3.0), spatstat.geom (>= 3.0), spatstat.random (>= 3.0),
spatstat.explore, spatstat.model, spatstat.linnet (>= 3.0),
spatstat (>= 3.0)
R (>= 3.5.0), spatstat.data (>= 1.6-1), spatstat.geom, stats,
graphics, grDevices, utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.0-0), stats, graphics, grDevices, utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.2-0), stats, graphics, grDevices, utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.2-0.003), stats, graphics, grDevices, utils, methods, nlme,
rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.3-0), stats, graphics, grDevices, utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.3-0), spatstat.random (>= 2.0), stats, graphics, grDevices,
utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.4-0), spatstat.random (>= 2.2-0), stats, graphics, grDevices,
utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 3.0), spatstat.geom (>= 3.0),
spatstat.random (>= 3.0), stats, graphics, grDevices, utils,
methods, nlme
R (>= 3.5.0), spatstat.data (>= 1.6-1), stats, graphics,
grDevices, utils, methods
R (>= 3.5.0), spatstat.data (>= 2.0), stats, graphics,
grDevices, utils, methods
R (>= 3.5.0), spatstat.data (>= 2.0-0), stats, graphics,
grDevices, utils, methods
R (>= 3.5.0), spatstat.data (>= 3.0), stats, graphics,
grDevices, utils, methods
R (>= 3.3.0), spatstat (>= 1.63-0), rpanel, tcltk, stats,
graphics, grDevices, utils, methods
R (>= 3.5.0), spatstat.geom (>= 1.65-0), spatstat.core (>=
1.65-0), spatstat.linnet (>= 1.65-0), spatstat.data, rpanel,
tcltk, stats, graphics, grDevices, utils, methods
R (>= 3.5.0), spatstat.geom (>= 2.0), spatstat.core (>= 2.0),
spatstat.linnet (>= 2.0), spatstat.data (>= 2.0), rpanel,
tcltk, stats, graphics, grDevices, utils, methods
R (>= 3.5.0), spatstat.geom (>= 2.0), spatstat.random (>=
2.0), spatstat.core (>= 2.3-2), spatstat.linnet (>= 2.3-1),
spatstat.data (>= 2.0), spatstat (>= 2.0), rpanel, tcltk,
stats, graphics, grDevices, utils, methods
R (>= 3.5.0), spatstat.geom (>= 3.0), spatstat.random (>=
3.0-0), spatstat.explore, spatstat.model (>= 3.0),
spatstat.linnet (>= 3.0), spatstat.data (>= 3.0), spatstat (>=
3.0), rpanel, tcltk, stats, graphics, grDevices, utils, methods
R (>= 3.5.0), spatstat.data (>= 1.4-2), spatstat.geom (>=
1.65-0), spatstat.core (>= 1.65-0), stats, graphics, grDevices,
methods, utils
R (>= 3.5.0), spatstat.data (>= 2.0), spatstat.geom (>=
1.65-0), spatstat.core (>= 1.65-0), stats, graphics, grDevices,
methods, utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.0-0), spatstat.core (>= 2.0-0), stats, graphics, grDevices,
methods, utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.2-0), spatstat.core (>= 2.2-0), stats, graphics, grDevices,
methods, utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.2-2), spatstat.core (>= 2.3-0), stats, graphics, grDevices,
methods, utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.3-0), spatstat.core (>= 2.3-0), stats, graphics, grDevices,
methods, utils
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.3-0), spatstat.random (>= 2.0), spatstat.core (>= 2.3-2),
stats, graphics, grDevices, methods, utils
R (>= 3.5.0), spatstat.data (>= 3.0), spatstat.geom (>= 3.0),
spatstat.random (>= 3.0), spatstat.explore (>= 3.0),
spatstat.model (>= 3.0), stats, graphics, grDevices, methods,
utils
R (>= 3.3.0), spatstat (>= 1.50-0), stats, graphics
R (>= 3.3.0), spatstat (>= 1.57-0), stats, graphics
R (>= 3.5.0), spatstat.data, spatstat.sparse, spatstat.geom
(>= 1.65-0), spatstat.core (>= 1.65-0), stats, graphics
R (>= 3.5.0), spatstat.data (>= 2.0), spatstat.sparse (>=
2.0), spatstat.geom (>= 2.0), spatstat.core (>= 2.0), stats,
graphics
R (>= 3.5.0), spatstat.data (>= 2.0), spatstat.sparse (>=
2.1-0), spatstat.geom (>= 2.3-2), spatstat.random (>= 2.1-0),
spatstat.core (>= 2.4-0), spatstat (>= 2.0), stats, graphics
R (>= 3.5.0), spatstat.data (>= 2.0), spatstat.sparse (>=
2.1-0), spatstat.geom (>= 2.3-2), spatstat.random (>= 2.1-0),
spatstat.core (>= 2.4-2), spatstat (>= 2.0), stats, graphics
R (>= 3.5.0), spatstat.data (>= 3.0), spatstat.sparse (>=
3.0), spatstat.geom (>= 3.0), spatstat.random (>= 3.0),
spatstat.explore, spatstat.model (>= 3.0), spatstat (>= 3.0),
stats, graphics
R (>= 3.5.0), spatstat.data (>= 3.0), spatstat.geom (>= 3.0),
spatstat.random (>= 3.0), spatstat.explore (>= 3.0), stats,
graphics, grDevices, utils, methods, nlme, rpart
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.3-0), stats, utils, methods, grDevices
R (>= 3.5.0), spatstat.data (>= 2.1-0), spatstat.geom (>=
2.4-0), stats, utils, methods, grDevices
R (>= 3.5.0), spatstat.data (>= 2.2-0.003), spatstat.geom (>=
2.4-0.023), stats, utils, methods, grDevices
R (>= 3.3.0), stats, utils, methods, Matrix, abind, tensor
R (>= 3.5.0), stats, utils, methods, Matrix, abind, tensor
R (>= 3.3.0), stats, graphics, grDevices, utils, methods
R (>= 1.7.0), stepfun, tripack, maptools (>= 0.3)
R (>= 2.14.0), methods, sp (>= 0.9), boot, Matrix (>=
0.999375-9), MASS, nlme, maptools (>= 0.5-4), deldir, coda,
splines
R (>= 2.10), rJava (>= 0.8-5), speedRlibs, speedRlibTF
R (>= 2.10), lattice, RColorBrewer, rgdal, SDMTools
R (>= 2.13), lattice, RColorBrewer, rgdal, SDMTools
R (>= 2.14.0), moments, ezsim,tmvtnorm, mvtnorm
R (>= 2.11.1), nlme, spdep, Matrix, fields
R (>= 2.15), nlme, spdep, Matrix, fields
R (>= 3.0.1), nlme, spdep, Matrix, fields
R (>= 2.13), ggplot2, R2WinBUGS, reshape, scales
R (>= 2.15.1), ggplot2, R2WinBUGS, reshape, scales
R (>= 3.0.0), lars, randomForest, parallel
R (>= 2.10.0), MASS, nlme, spdep, plm, Matrix, bdsmatrix,
spam, ibdreg, car, lmtest, Ecdat
R (>= 2.15.0), MASS, nlme, spdep, plm, Matrix, bdsmatrix,
spam, ibdreg, car, lmtest, Ecdat, maxLik
R (>= 3.2.1), stats, graphics, grDevices, utils, USAboundaries
R (>= 3.2.1), stats, graphics, grDevices, utils
R (>= 2.9.2), rlecuyer, ff (>= 2.1-1), randomForest
R (>= 3.0.0), randomForestSRC, CoxBoost, survival, LogicReg
R (>= 2.5.1), RSQLite (>= 0.5-5), gsubfn, DBI, proto
R (>= 2.5.1), DBI, RSQLite (>= 0.5-5), gsubfn, proto
R (>= 2.10.0), DBI (>= 0.2-5), RSQLite (>= 0.8-0),
RSQLite.extfuns, gsubfn, proto, chron
R (>= 3.1.0), gsubfn (>= 0.6), proto, RSQLite
R (>= 2.14.0), gsubfn (>= 0.6), proto, RSQLite (>= 0.8-0),
RSQLite.extfuns
R (>= 3.4.0), graphics, stats, VGAM, ggplot2, fitdistrplus
R (>= 2.5.0), methods, grid, lattice, graphics, base, stats
Matrix, maxLik, spdep (>= 1.1-1), sp, spatialreg (>= 1.1-1)
R (>= 2.15.1), MASS, mvtnorm, KFAS, Matrix
GIGrvg, numDeriv, splines, normalp, Formula
GIGrvg, numDeriv, normalp, Formula, survival
R (>= 2.10), methods, stats, graphics, grDevices, utils, mAr,
lmom,
R (>= 3.0.0), methods, stacomirtools, RODBC
R (>= 3.5.0), methods, stacomirtools, RODBC
R (>= 4.0.0), methods, stacomirtools (>= 0.6.0)
R (>= 3.0.0), ggplot2, grid, scales, gridExtra, RColorBrewer
network, ergm, latentnet, degreenet, sna
R (>= 2.6), network (>= 1.3), ergm (>= 2.1), latentnet (>= 2.1-1), degreenet (>= 1.0), sna (>= 1.5), networksis (>= 1.0), abind, shapes, tools, utils
R (>= 2.11), network (>= 1.6), ergm (>= 2.3), latentnet (>=
2.4), degreenet (>= 1.1), sna (>= 2.2), abind, shapes, tools,
utils
R (>= 3.1.0), shiny (>= 0.12.1), ergm (>= 3.2.4), network,
lattice, latticeExtra
R (>= 3.5), shiny (>= 1.3), ergm (>= 3.10.4), network,
lattice, latticeExtra
R (>= 2.10), splancs, KernSmooth, spatstat
R (>= 3.3.0), grDevices, graphics, rpanel, splancs
R (>= 3.4.0), fitdistrplus, stats, zipfR, actuar, triangle,
mc2d
R (>= 3.4.0), fitdistrplus, zipfR, stats, actuar, triangle,
mc2d
R (>= 3.5.0), parallel, purrr, partitions, MultAlloc
R (>= 2.13.0), proxy (>= 0.4-7), rJava (>= 0.6-3), methods,
hash, clusterGeneration, fpc, birch, MASS, clue, animation,
mlbench, igraph, Rcpp
R (>= 3.5.0), methods, registry, proxy (>= 0.4-7)
R (>= 3.5.0), methods, proxy (>= 0.4-7), magrittr
R (>= 2.1.0), graphics, stats, zoo, sandwich
R (>= 2.10.0), graphics, stats, zoo, sandwich
multtest, igraph, Rgraphviz, RColorBrewer, classInt, methods
multtest, igraph0, Rgraphviz, RColorBrewer, classInt, methods
R (>= 3.0.0), methods, pedigree, Rgraphviz(>= 2.6.0)
graphics, grDevices, utils, stats, R (>= 3.1)
R (>= 2.3.0), grImport, gridBase, Biostrings
R (>= 3.4.0), CTT, stats, irtoys, sirt, cocor
R (>= 3.4.0), CTT, stats, irtoys, sirt, ltm
ggplot2, pbapply, plotly, RColorBrewer, R (>= 3.5.0)
ggplot2, pbapply, plotly, RColorBrewer, Rfast, R (>= 3.5.0)
R (>= 2.9.0), stats, grDevices, graphics
DoE.base, MASS, simex, stats, RCurl, XML
R (>= 2.6), ape, ouch, geiger, igraph, pmc
methods, R (>= 3.6.0), Rcpp (>= 0.12.19), flexsurv, dplyr,
ggplot2
R (>= 2.13.0), survival, data.table, zoo
R (>= 2.10), survival, stats, ggplot2, data.table, rpart
R (>= 2.10), survival, km.ci, stats, ggplot2, data.table,
gridExtra
survival, ipred, prodlim, survivalROC, SuppDists, R (>= 2.3.0)
survival, ipred, prodlim, survivalROC, SuppDists, bootstrap, R
(>= 2.3.0)
R (>= 3.0.2), methods, grDevices, graphics, stats, utils, sp
(>= 1.0-15), xtable, polyCub (>= 0.4-3)
R (>= 3.2.0), methods, grDevices, graphics, stats, utils, sp
(>= 1.0-15), xtable, polyCub (>= 0.4-3)
R (>= 3.2.0), methods, grDevices, graphics, stats, utils, sp
(>= 1.0-15), xtable (>= 1.7-0), polyCub (>= 0.4-3)
R (>= 3.2.0), methods, grDevices, graphics, stats, utils, sp
(>= 1.0-15), xtable (>= 1.7-0), polyCub (>= 0.6.0)
R (>= 3.2.0), methods, grDevices, graphics, stats, utils, sp
(>= 1.0-15), xtable (>= 1.7-0)
R (>= 3.6.0), methods, grDevices, graphics, stats, utils, sp
(>= 1.0-15), xtable (>= 1.7-0)
R (>= 2.10.1), grDevices, graphics, stats, utils, xtable,
methods, Rcpp, sp
R (>= 2.14.0), grDevices, graphics, stats, utils, xtable,
methods, Rcpp, sp
R (>= 2.14.0), grDevices, graphics, stats, utils, methods,
xtable, Rcpp, sp (>= 1.0-6)
R (>= 2.15.2), methods, grDevices, graphics, stats, utils,
Rcpp, sp (>= 1.0-6), xtable, polyCub (>= 0.4-0)
R (>= 2.15.2), methods, grDevices, graphics, stats, utils,
Rcpp, sp (>= 1.0-15), xtable, polyCub (>= 0.4-2)
R (>= 3.0.2), methods, grDevices, graphics, stats, utils,
Rcpp, sp (>= 1.0-15), xtable, polyCub (>= 0.4-3)
R (>= 2.14.0), grid, methods, Matrix, survival
R (>= 2.16.0), grid, methods, Matrix, survival
R (>= 3.1.0), grid, methods, Matrix, survival
R (>= 3.5.0), grid, methods, Matrix, survival
R (>= 2.2.0), RSQLite, Matrix, survival, KernSmooth, survey
stats, utils, graphics, splines, R (>= 2.0.0)
stats, utils, graphics, splines, R (>= 2.6.0)
stats, utils, graphics, splines, R (>= 2.13.0)
stats, utils, graphics, splines, R (>= 2.10.0)
operators, codetools, svMisc, tools, utils
R (>= 2.3), spdep, quadprog, ade4, methods
R (>= 2.10), spdep, quadprog, ade4, methods, amap
R (>= 2.3), spdep, quadprog, ade4, methods, amap
R (>= 2.15.0), quadprog, methods, Matrix, MASS
R (>= 3.4.0), arm, lme4, maptools, blme, sp, utils
R (>= 3.1.1), parallel, parmigene, GenKern, igraph
R (>= 2.10), lattice, igraph, MASS, LDheatmap, qtl, doBy, BLR,
regress (>= 1.3-8), abind, synbreedData
R (>= 2.14), lattice, igraph0, MASS, LDheatmap, qtl, doBy,
BLR, regress (>= 1.3-8), abind, synbreedData
R (>= 2.14), lattice, igraph0, MASS, LDheatmap, qtl, doBy,
BLR, regress (>= 1.3-8), abind, synbreedData (>= 1.3)
lattice, MASS, methods, nnet, ggplot2, coefplot
tabplot (>= 0.11), gWidgets, gWidgetsRGtk2, classInt
tabplot (>= 0.11-2), gWidgets, gWidgetsRGtk2, classInt
tabplot (>= 0.12), gWidgets, gWidgetsRGtk2, classInt
R (>= 3.2.3), R6, stringr, base64enc, digest, magrittr
R (>= 2.8.0), futile, zoo, xts, quantmod
R (>= 2.8.0), futile, futile.logger, zoo, xts, quantmod
R (>= 2.10.0), tawny.types (>= 1.0.0), futile.matrix (>=
1.1.0), futile.logger (>= 1.2.0), PerformanceAnalytics, zoo,
xts, quantmod, RUnit
R (>= 2.10), tawny.types (>= 1.1.0), futile.matrix (>= 1.2.0),
futile.logger (>= 1.3.0), PerformanceAnalytics, quantmod
futile.logger (>= 1.2.0), futile.paradigm (>= 2.0.0),
futile.any (>= 1.2.0), quantmod, RUnit
futile.logger (>= 1.3.0), futile.any (>= 1.3.0), quantmod
R (>= 2.12.0), mvtnorm, sn, mclust, cluster
statnet.common (>= 3.1-0), ergm (>= 3.1-0), robustbase, nlme,
network, networkDynamic, coda
statnet.common (>= 3.1-0), ergm (>= 3.1-0), network (>= 1.7),
networkDynamic (>= 0.4)
statnet.common (>= 3.2), ergm (>= 3.2.3), network (>= 1.11),
networkDynamic (>= 0.7)
statnet.common (>= 3.2), ergm (>= 3.4), network (>= 1.12),
networkDynamic (>= 0.7.1)
statnet.common (>= 3.3), ergm (>= 3.5), network (>= 1.13),
networkDynamic (>= 0.8.1)
statnet.common (>= 3.3), ergm (>= 3.6), network (>= 1.13),
networkDynamic (>= 0.8.1)
statnet.common (>= 4.0), ergm (>= 3.8), network (>= 1.13),
networkDynamic (>= 0.8.1)
grid, quadprog, maps, maptools, mapdata, dichromat
R (>= 2.15), distrom, gamlr, Matrix, stats, graphics
R (>= 3.1), dplyr(>= 0.7), rlang, purrr, tibble, tidyr
R (>= 3.0.0), lubridate, PerformanceAnalytics, quantmod (>=
0.4-13)
R (>= 3.0.0), lubridate, PerformanceAnalytics, quantmod (>=
0.4-13), tidyverse
R (>= 3.5.0), lubridate, PerformanceAnalytics, quantmod (>=
0.4-13)
R (>= 2.10.0), e1071, hexbin, qualV, klaR, som
R (>= 1.8.0), e1071, hexbin, qualV, klaR, som
R (>= 2.6.0), graphics, utils, stats, methods
R (>= 2.10.0), graphics, utils, stats, methods
R (>= 2.11.0), graphics, utils, stats, methods
R (>= 2.15.1), graphics, utils, stats, methods
R (>= 2.6.0), graphics, grDevices, methods, stats, utils,
timeDate (>= 290.84)
R (>= 2.6.0), graphics, grDevices, methods, stats, utils,
timeDate (>= 290.85)
R (>= 2.6.0), graphics, grDevices, methods, stats, utils,
timeDate (>= 2100.86)
R (>= 2.10), graphics, grDevices, methods, stats, utils,
timeDate (>= 2150.95)
R (>= 2.6.0), graphics, grDevices, methods, stats, utils, timeDate
R (>= 2.6.0), graphics, grDevices, methods, stats, utils,
timeDate
R (>= 2.10), graphics, grDevices, stats, methods, utils,
timeDate (>= 2150.95)
R (>= 3.0.0), RPostgreSQL, jsonlite (>= 1.1), methods
R (>= 1.9.0), MASS, boot, tcltk, splines, lattice
R (>= 2.7.0), MASS, boot, tcltk, splines, lattice
R (>= 1.9.0), MASS, boot, tcltk, splines
R (>= 3.5.0), blink, stats, utils, plyr, igraph, bit64
cba, filehash, Matrix, methods, Snowball, XML
R (>= 2.5.0), filehash, Matrix, methods, Snowball, XML
R (>= 2.7.0), filehash, Matrix, methods, Snowball, XML
R (>= 2.10), tm, RCurl, XML, boilerpipeR
R (>= 1.9.0), mvtnorm, utils, stats4, gmm
R (>= 1.9.0), mvtnorm, utils, Matrix, stats4, gmm
R (>= 2.10.0), igraph, survival, network, sna
stats4, methods, modeltools, slam, tm (>= 0.5-6)
R (>= 2.10), stats4, methods, modeltools, slam, tm (>= 0.5-6)
stats4, methods, modeltools, tm (>= 0.4)
stats4, methods, modeltools, slam, tm (>= 0.4)
stats4, methods, modeltools, slam, tm (>= 0.5)
stats4, methods, modeltools, slam, tm (>= 0.5-5)
R (>= 2.10), lasso2, stats4, methods, modeltools, slam, tm (>=
0.5-6)
R (>= 2.7), tourr, colorspace, RGtk2, gWidgets, Cairo
R (>= 2.14.0), tourr (>= 0.5.1), colorspace, RGtk2, gWidgets,
Cairo
R (>= 2.5.0), graphics, grDevices, stats, utils
R (>= 2.12.1), graphics, grDevices, methods, stats, utils
digest, proto, gWidgets, gWidgetsRGtk2 (>= 0.0-63)
R (>= 3.0.0), utils, grDevices, graphics, stats
R (>= 2.3.0), grDevices, graphics, stats
R (>= 2.7.0), grDevices, graphics, stats
R (>= 2.14.0), grDevices, graphics, stats
R (>= 2.15.0), grDevices, graphics, stats
R (>= 3.6.0), grDevices, graphics, stats
R(>= 2.10), stats, methods, truncreg, boot
R (>= 4.1.0), igraph (>= 1.2.11), parallel, compiler
mgcv, Matrix, snow,mnormt,foreach, MASS, nlme
mgcv, Matrix, snow,mnormt,foreach, MASS, nlme,methods
mgcv, Matrix, snow, mnormt,foreach, MASS, nlme,methods
R (>= 3.6.0), Matrix , vars, fftwtools, hdm
package ts, White.test needs package mva, portfolio.optim needs package quadprog
package ts (included in the R release), white.test needs package mva,
portfolio.optim needs package quadprog, get.hist.quote needs package
chron.
package ts (included in the R release), white.test needs package
mva, portfolio.optim needs package quadprog, get.hist.quote needs package
chron.
R (>= 2.10), beepr, doSNOW, parallel, foreach
network (>= 1.13), networkDynamic (>= 0.8), R (>= 3.0), ergm
R (>= 3.2.3), robustbase, MASS, fracdiff
sva, limma, matrixStats, corpcor, stats, MASS
R (>= 2.12.0), numDeriv, methods, graphics, quantreg
R (>= 2.12.0), numDeriv, methods, graphics, quantreg, foreach
R (>= 2.12.0), doParallel, foreach, numDeriv, quantreg
R (>= 3.0.1), Matrix, graphics, stats (>= 2.14.0), methods
R (>= 3.0.1), Matrix, graphics, stats (>= 2.14.0), methods,
plm
R (>= 3.6), Matrix, graphics, stats (>= 2.14.0), methods, plm
R (>= 3.6), Matrix, graphics, stats (>= 2.14.0), methods
R (>= 3.5.0), garchx, hier.part, matrixStats, numDeriv, zoo
R (>= 3.5.0), garchx, zoo, matrixStats, numDeriv, hier.part
R (>= 3.5.0), garchx, zoo, numDeriv, hier.part
R (>= 2.2), gbm (>= 1.5-3), survey, xtable, mlmRev
R (>= 2.10), gbm (>= 1.5-3), survey, xtable, latticeExtra
R (>= 2.10), gbm (>= 1.5-3), survey, xtable, lattice,
latticeExtra
R (>= 3.5.0), xgboost, data.table, ggplot2
R (>= 3.2), ROAuth, streamR, RPostgreSQL, rgdal
R (>= 2.10), data.table, MCMCpack, corrplot
R (>= 2.12.0), methods, reshape, lattice, Rcpp (>= 0.8.0),
RcppArmadillo (>= 0.2.0)
R (>= 2.12.0), methods, reshape, lattice, Rcpp (>= 0.8.0)
R (>= 2.12.0), methods, reshape, lattice, parallel, Rcpp (>=
0.8.0)
R (>= 2.12.0), methods, lattice, parallel, Rcpp (>= 0.8.0),
reshape2
R (>= 2.12.0), methods, lattice, parallel, Rcpp (>= 0.8.0)
R (>= 2.12.0), methods, reshape, lattice
R (>= 2.10), partitions, Brobdingnag (>= 1.1.8), polynom
R (>= 3.0.0), RItools, MASS, coin, tables, penalized
tmvtnorm, mvtnorm, MCMCpack, MASS, stats
R (>= 3.2.3), jsonlite, stringr, plyr, httr, curl
R (>= 3.4.0), mgcv, gamm4, Matrix, mvtnorm, truncnorm
R (>= 3.2.3), data.table (>= 1.10.4), laeken, stringr
R (>= 3.2.3), data.table (>= 1.10.4), laeken, stringr,
ggplot2, pracma, graphics
R (>= 3.0.0), data.table (>= 1.9.4), laeken, stringr
R (>= 3.0.0), data.table (>= 1.9.6), laeken, stringr
R (>= 3.2.3), data.table (>= 1.9.6), laeken, stringr
R (>= 3.2.3), data.table (>= 1.10.0), laeken, stringr
R (>= 3.1.2), parallel, ggplot2, quantreg
R (>= 3.1.0), parallel, splines, ggplot2, quantreg
R (>= 3.2.2), parallel, ggplot2, quantreg
R (>= 3.2.0), parallel, ggplot2, quantreg
R (>= 3.3.1), parallel, ggplot2, quantreg
R (>= 3.4.0), parallel, ggplot2, quantreg
R (>= 4.2.0), parallel, ggplot2, quantreg
R (>= 2.10.0), foreign, RMySQL, indicspecies
R (>= 2.1), fields, waveslim, boot, CircStats
R (>= 2.3), fields, waveslim, boot, CircStats
R, methods, waveslim, fields, boot, CircStats
methods, waveslim, fields, boot, CircStats
R (>= 2.10), methods, waveslim, fields, boot, CircStats, MASS
R (>= 2.10), methods, fields, boot, CircStats, MASS, dtw
copula, extraDistr, cubature, polyCub, VineCopula
methods, copula, ADGofTest, cubature, TSP
R (>= 2.10.0), stats, utils, gridBase, flip, matrixStats,
Hmisc
R (>= 2.14.0), stats, utils, gridBase, flip, matrixStats,
Hmisc
R (>= 2.14.0), stats, utils, gridBase, flip (>= 1.3),
matrixStats, Hmisc
R (>= 2.14.0), stats, utils, gridBase, flip (>= 2.1),
matrixStats, Hmisc
R (>= 2.14.0), stats, utils, gridBase, flip (>= 2.0),
matrixStats, Hmisc
R (>= 2.14.0), stats, utils, gridBase, grid, flip (>= 2.1),
matrixStats, Hmisc
R (>= 3.5), optionstrat, plotly, dplyr, quantmod, jsonlite
R (>= 2.12.2),utils, stats, grDevices, graphics, base64
R (>= 2.12.2),utils, stats, grDevices, graphics
R (>= 2.11.1), deldir, spatialkernel, splancs, gpclib
R (>= 2.9.0), fda, gamm4, RLRsim, Rniftilib, rpanel, shape,
stringr, tcltk, tkrplot
R (>= 2.9.0), fda, gamm4, RLRsim, Rniftilib, rpanel (>=
1.1-1), shape, stringr, tcltk, tkrplot
R(>= 2.10.0), RecordLinkage, lattice, latticeExtra
R(>= 3.0.1), stringdist, lattice, latticeExtra
R (>= 3.2.1), maps, tuneR, seewave (>= 2.0.1), NatureSounds
R (>= 3.2.1), tuneR, seewave (>= 2.0.1), NatureSounds
R (>= 2.14.1), lattice, latticeExtra, XML
R (>= 2.15.1), lattice, latticeExtra, XML
R (>= 1.9.0), stats, graphics, grDevices
R (>= 2.10.0), graphics, grDevices, stats
R (>= 2.10.0), graphics, grDevices, stats, utils
R (>= 2.11.0), graphics, grDevices, stats, utils
R (>= 3.0.0), methods, survey, plyr, HotDeckImputation, mice
R (>= 2.10), rjson, ggplot2, plyr, reshape, tm, wordcloud,
RColorBrewer, RCurl
R (>= 2.15), rjson, ggplot2, plyr, reshape, tm, wordcloud,
RColorBrewer, RCurl
R (>= 2.10.0), chron, survival, sp, maptools, spatstat,
gpclib, ICSNP
R (>= 2.10.0), chron, survival, sp, maptools, spatstat, ICSNP,
ks
geiger (>= 2.0), ape, scatterplot3d, utils, R (>= 3.0.0)
geiger (>= 2.0), ape, phangorn, scatterplot3d, utils, R (>=
3.0.0)
geiger (>= 2.0), ape (>= 4.0), phangorn, scatterplot3d, utils,
R (>= 3.0.0)
R (>= 2.4.1), splus2R, ifultools, graphics, stats, MASS
R (>= 2.5.1), splus2R (>= 1.0-1), ifultools (>= 1.0-2), graphics, stats, MASS
R (>= 2.5.1), splus2R (>= 1.0-2), ifultools (>= 1.0-3), graphics, stats, MASS
R (>= 2.5.1), splus2R (>= 1.0-2), ifultools (>= 1.0-3),
graphics, stats, MASS
R (>= 2.5.1), splus2R (>= 1.1-0), ifultools (>= 1.1-1),
graphics, stats, MASS
R (>= 3.0.2), splus2R (>= 1.2-0), ifultools (>= 2.0-0), MASS,
graphics, stats
R(>= 3.2.2), data.table, openxlsx, quanteda,
R(>= 3.2.2), data.table, openxlsx, quanteda
R (>= 2.10), grDevices, stats, lattice, latticeExtra, clv
R (>= 2.10), grDevices, stats, lattice, latticeExtra, fpc
R (>= 2.10), sp, ncdf, reshape, abind, fields
R (>= 2.10), sp, ncdf4, reshape, abind, fields
R (>= 2.14.0),methods,stats,utils,grDevices,x12(>=
1.0-2),RGtk2, cairoDevice
R (>= 2.14.0),stats,utils,grDevices,datasets,x12 (>= 1.3.0)
R (>= 2.14.0),stats,utils,grDevices,datasets,x12 (>= 1.1-0)
xgobi & xgvis programs: http://www.research.att.com/areas/stat/xgobi/
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.0), xpose4generic (>= 4.3.0), xpose4specific (>=
4.3.0), xpose4classic (>= 4.3.0)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.2), xpose4generic (>= 4.3.2), xpose4specific (>=
4.3.2), xpose4classic (>= 4.3.2)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.5), xpose4generic (>= 4.3.5), xpose4specific (>=
4.3.5), xpose4classic (>= 4.3.5)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.4.0), xpose4generic (>= 4.4.0), xpose4specific (>=
4.4.0), xpose4classic (>= 4.4.0)
R (>= 2.2.0), methods, xpose4data (>= 4.4.1), xpose4generic
(>= 4.4.1), xpose4specific (>= 4.4.1), xpose4classic (>= 4.4.1)
R (>= 2.2.0), methods, lattice, grid, gam
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.0), xpose4generic (>= 4.3.0), xpose4specific (>= 4.3.0)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.2), xpose4generic (>= 4.3.2), xpose4specific (>= 4.3.2)
R (>= 2.2.0), lattice, survival, methods, xpose4data (>=
4.3.5), xpose4generic (>= 4.3.5), xpose4specific (>= 4.3.5)
R (>= 2.2.0), lattice, survival, methods, xpose4data (>=
4.4.0), xpose4generic (>= 4.4.0), xpose4specific (>= 4.4.0)
R (>= 2.2.0), methods, lattice, xpose4data (>= 4.4.1),
xpose4generic (>= 4.4.1), xpose4specific (>= 4.4.1)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.0)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.2)
R (>= 2.2.0), lattice, grid, methods, xpose4data (>= 4.3.5)
R (>= 2.2.0), lattice, grid, methods, xpose4data (>= 4.4.0)
R (>= 2.2.0), lattice, grid, methods, xpose4data (>= 4.4.1)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.0), xpose4generic (>= 4.3.0)
R (>= 2.2.0), lattice, grid, Hmisc, gam, methods, xpose4data
(>= 4.3.2), xpose4generic (>= 4.3.2)
R (>= 2.2.0), lattice, grid, survival, Hmisc, gam, methods,
xpose4data (>= 4.3.5), xpose4generic (>= 4.3.5)
R (>= 2.2.0), lattice, grid, survival, Hmisc, gam, methods,
xpose4data (>= 4.4.0), xpose4generic (>= 4.4.0)
R (>= 2.2.0), lattice, grid, gam, methods, xpose4data (>=
4.4.1), xpose4generic (>= 4.4.1)
methods, zoo, stats4, utils, expm, cubature, mvtnorm
R(>= 2.10.0), methods, zoo, stats4, utils, expm, cubature,
mvtnorm
R (>= 2.14.0), MASS, NADA, truncnorm, miscF
R (>= 2.14.0), methods, MASS, NADA, truncnorm
R (>= 3.0.2), rjags, coda, matrixcalc, Formula
R (>= 3.0.2), rjags, coda, matrixcalc, Formula, abind
R (>= 3.2.2), rjags, coda, matrixcalc, Formula, abind
R (>= 3.3.0), rjags, coda, matrixcalc, Formula, abind
R (>= 3.3.0), rjags, coda, Formula, abind
R (>= 1.9.0), Biobase, XML, methods, annotate, utils
graph, GO, annotate, RBGL, xtable, Biobase, genefilter, multtest
R (>= 2.0.0), methods,  stats, locfit, Biobase, marray
R (>= 1.8.0), cluster, repeated, rmutil, survival, multtest, sma
R (>= 1.9.0), affy (>= 1.5), affydata, hgu95av2probe
R (>= 1.9.0), Biobase, affy, matchprobes, hgu95acdf, hgu133aprobe, plasmodiumanophelescdf
golubEsets, Biobase, class, nnet, xtable
R (>= 1.9.0), methods, Biobase, genefilter, survival, reposTools
R (>= 2.1.0), methods, Biobase, XML, annotate, utils
R (>= 1.9.0), Biobase, affy, matchprobes,
R (>= 1.7.1), locfit, tkrplot, xtable, methods
R (>= 2.0.0), methods, Biobase, annotate
R (>= 1.9.0), methods, graph, SparseM, GO, Biobase, annotate
R (>= 2.1.0), survival, xtable, stats, KernSmooth, MASS, grid,
splancs, methods, hexbin, rfcdmin (>= 0.9.0), fields
graph, GO, annotate, RBGL, xtable, Biobase, genefilter,
multtest
methods, XML, SSOAP (>= 0.2-2), RCurl (>= 0.4)
R (>= 1.8.0), cluster, survival, multtest, sma
R (>= 2.0.0), affy (>= 1.5.0), affydata, Biobase, methods, gcrma
R (>= 2.1.0), Biobase, affy, matchprobes, makecdfenv
R (>= 1.4.0), marray, limma, convert, hexbin, gridBase
R (>= 1.9.0), affy, ecoliLeucine, ecolicdf
methods, golubEsets, Biobase, class, nnet, xtable
R (>= 2.1.0), annotate, Biobase, methods
R (>= 2.1.0), Biobase, RColorBrewer, grid
R (>= 2.1.0), survival, xtable, stats, KernSmooth, MASS,
grid, splancs, methods, hexbin, rfcdmin (>= 0.9.0), fields, locfit, lattice
R (>= 2.1.0), methods, Biobase, XML, annotate, utils, RSQLite
Biobase, KEGG, hgu95av2, genefilter, GO, graph, annotate
graph (>= 1.9.25), GO, annotate, RBGL, xtable, Biobase, genefilter,
multtest, Category (>= 1.3.7)
R (>= 2.1.0), graph, Rgraphviz, RGtk, gtkDevice, Biobase
apComplex, GO, GOstats, graph, RBGL, Rgraphviz, YEAST, xtable
R (>= 2.0.1), Biobase (>= 1.5.0), methods, utils, affyio
R (>= 2.1.0), Biobase, affy, genefilter, limma, geneplotter, RColorBrewer, prada, combinat
R (>= 2.2.0), marray, limma, convert, hexbin, gridBase, RColorBrewer
methods, tools, graph (>= 1.9.26), RBGL, XML
R (>= 1.8.1), Biobase, limma (>= 1.7.0), marray, utils, methods
Biobase, externalVector, R (>= 1.9.0), methods, stats,
utils, graphics
R (>= 2.0), methods, grid, lattice, colorspace
R (>= 2.3.0), survival, xtable, stats, KernSmooth, MASS,grid, splancs, methods, hexbin, rfcdmin (>= 0.9.0), fields, lattice,locfit
graph, apComplex, Rgraphviz, ScISI, y2hStat
R (>= 2.1.1), limma (>= 1.8.6), MASS, Biobase, methods
GO, GOstats, YEAST, ScISI, graph, Rgraphviz
R (>= 2.0), methods, widgetTools, affy, R2HTML, grDevices, tkWidgets
R (>= 2.1.0), methods, MVCClass, Biobase, graph, Rgraphviz
Biobase, KEGG, GO, graph, annotate, methods, genefilter
R (>= 2.4.0), Biobase (>= 1.11.0), methods, utils, lattice
R (>= 2.4), methods, Biobase (>= 1.11.34), genefilter
R (>= 2.1), Biobase, methods, genefilter
R (>= 2.2.0), survival, Biobase, MASS, methods
R (>= 2.1.0), methods, graph, geneplotter (>= 1.11.3)
methods, apComplex, GO, GOstats, graph, RBGL, Rgraphviz, YEAST, xtable
R (>= 2.4.0), affy (>= 1.11.0), affydata, Biobase, methods, gcrma
R (>= 2.4.0), Biobase (>= 1.12.0), methods, utils, affyio
R (>= 2.4.0), affy (>= 1.5), affydata, hgu95av2probe
R (>= 2.1.0), methods, Biobase, affy, matchprobes, makecdfenv
R (>= 2.1.0), Biobase, methods, affy, genefilter, limma, geneplotter, RColorBrewer, prada, combinat
methods, Biobase (>= 1.11.32), limma, quantsmooth
R (>= 2.4.0), methods, tools, graph (>= 1.9.26), RBGL, XML
R (>= 1.9.0), affy, ecoliLeucine, ecolicdf, Biobase
R (>= 2.0.1), Biobase, affy (>= 1.5.0), matchprobes, splines
R (>= 2.4.0), annotate, Biobase (>= 1.11.34), methods
R (>= 2.0.0), methods, graph, Rgraphviz, RGtk, gtkDevice,
BioMVCClass, MVCClass, Biobase, annotate (>= 1.11.10)
R (>= 2.0.0), methods, RGtk, gtkDevice, MVCClass
R (>= 2.3.1), methods, graph, SparseM, GO, Biobase, annotate
apComplex, GO, GOstats, YEAST, graph, Rgraphviz, Category
R (>= 2.1.0), Biobase, RColorBrewer, grid, methods, geneplotter
R (>= 2.3.0), survival, xtable, stats, KernSmooth, MASS, grid, methods, hexbin, rfcdmin (>= 0.9.0), fields, lattice, locfit
graph, apComplex, Rgraphviz, ScISI, ppiStats
limma, tilingArray, DNAcopy, aCGH, GLAD, cluster, methods
R (>= 2.3.0), digest, tools, utils, codetools
R (>= 1.8.0), Biobase, affy, multtest, annaffy, vsn, gcrma, qvalue
R (>= 2.5.0), tools, methods, utils, Biobase (>= 1.14.0), hgu133a, annotate
R (>= 2.4.0), affy , ath1121501cdf , tinesath1cdf , RColorBrewer , methods, grid
R (>= 2.4.0), widgetTools, affy, R2HTML, grDevices, tkWidgets, methods
methods, Biobase (>= 1.13.37), graph, KEGG, GO,
annotate (>= 1.13.7), genefilter, Matrix
R (>= 2.4.0), Biobase (>= 1.11.41), GGtools, hgfocus, methods
R (>= 2.2.0), methods, Biobase (>= 1.11.26), hgfocus, geneplotter(>= 1.11.8), mgu74av2
R (>= 2.1), Biobase, methods, genefilter, rpart, rda
R (>= 2.5.0), methods, stats, locfit, Biobase, marray
SJava (>= 0.69-4), TypeInfo, methods, tools, R (>= 2.5.0)
R (>= 2.4.0), methods, utils, graph, geneplotter (>= 1.11.3)
graphics, methods, Biobase, geneplotter, limma, vsn, RColorBrewer
R (>= 2.5.0), Biobase (>= 1.11.0), tools, methods, geneplotter, oligo, stats, graphics
methods, apComplex, GO, GOstats, graph, RBGL, Rgraphviz, YEAST, xtable, Matrix
R (>= 2.4.0), affy (>= 1.11.0), affydata, Biobase, methods, gcrma, stats
Biobase (>= 1.13.16), affy, simpleaffy, xtable, affyPLM, RColorBrewer, geneplotter, lattice
affy, limma, GOstats, biomaRt, gcrma, Biobase, annotate, xtable, annaffy
R (>= 2.3.0), affy (>= 1.5), affydata, hgu95av2probe
R (>= 2.5), methods, Biobase, affy, matchprobes, makecdfenv
limma, Biobase, geneplotter, methods, affy, beadarraySNP
R (>= 2.5), affy, ecoliLeucine, ecolicdf, Biobase
R (>= 2.0), affy, simpleaffy, genefilter, RColorBrewer, RMySQL (>= 0.5-11), DBI, methods, plier
R (>= 2.4.0), flowCore (>= 0.3.0), Biobase, rgl, geneplotter, lattice, MASS, methods
R (>= 2.4.0), annotate, Biobase (>= 1.11.34), methods, lattice
R (>= 2.4.0), Biobase (>= 1.12.0), affy, mgcv, annotate, methods
methods, R (>= 2.5.0), Biobase (>= 1.13.58), affyio (>= 1.3.4),
splines, RSQLite, BufferedMatrix (>= 0.99.00), BufferedMatrixMethods (>= 0.99.0)
R (>= 2.4.0), methods, graph, SparseM, GO, Biobase, annotate
GO, GOstats, YEAST, graph, Category, ppiData (>= 0.1.1)
R (>= 2.1.0), Biobase, RColorBrewer, grid, methods
R (>= 2.5.0), Biobase, affy, limma, annotate, ROCR
R (>= 2.3.0), survival, xtable, stats, KernSmooth, MASS, grid, methods,
hexbin, rfcdmin (>= 0.9.0), fields, lattice, locfit, splancs
R (>= 2.0.0), affy, genefilter, Biobase, methods, utils
limma, tilingArray, DNAcopy, GLAD, cluster, methods, aCGH
R (>= 2.5.0), Biobase (>= 1.4.14), methods, affy, limma
R (>= 2.5.0), digest, tools, utils, codetools
methods, Biobase (>= 1.15.29), graph,
annotate (>= 1.15.6), genefilter, AnnotationDbi (>= 0.1.15)
R (>= 1.8.0), Biobase, utils, lattice, cluster
R (>= 2.4.0), Biobase (>= 1.11.41), GGtools, hgfocus.db, methods
R (>= 2.5.0), methods, Biobase (>= 1.11.26), hgfocus, geneplotter(>= 1.11.8), mgu74av2
R (>= 2.6.0), methods, AnnotationDbi (>= 1.0.6)
R (>= 2.5.0), methods, Biobase (>= 1.15.23), genefilter
R (>= 2.3.1), methods, combinat, xtable, mvtnorm, haplo.stats
combinat, gdata, gmodels, gtools (>= 2.4.0), mvtnorm
R (>= 2.1), Biobase, MASS, methods, genefilter, rpart, rda
R (>= 2.6.0), methods, marray, limma, Biobase
XML (>= 1.9), graph, ppiStats, hypergraph
methods, apComplex, GO, GOstats, graph, RBGL, Rgraphviz,
YEAST, xtable, Rintact (>= 0.3.19)
R (>= 2.5.0), affy (>= 1.11.0), Biobase, methods, gcrma, stats, preprocessCore (>= 0.99.15)
Biobase (>= 1.13.16), affy, simpleaffy, xtable, affyPLM, RColorBrewer, geneplotter, genefilter, lattice
R (>= 2.6.0), Biobase (>= 1.13.41), methods, utils, affyio (>= 1.5.10), preprocessCore
R (>= 2.4.0), methods, Biobase, AnnotationDbi (>= 0.1.15), xtable
R (>= 2.6.0), Biobase (>= 1.15.13), geneplotter (>= 1.15.2), genefilter(>= 1.15.6), vsn (>= 3.0.10), RColorBrewer, affyPLM, simpleaffy, CCl4 (>= 1.0.7), lattice, latticeExtra, grid
limma, Biobase, methods, geneplotter, affy
graph, geneplotter, Rgraphviz, Biobase, fibroEset, hgu95av2, methods
methods, Biobase, limma, annotate, genefilter
R (>= 2.0), affy, simpleaffy, genefilter, RColorBrewer, RMySQL (>= 0.6-0), DBI, methods, plier
R (>= 2.4.0), flowCore (>= 0.3.0), Biobase, geneplotter, lattice, MASS, methods
R (>= 2.6.0), Biobase, affy (>= 1.5.0), matchprobes, splines
R (>= 2.1.0), methods, Biobase (>= 1.15.29), survival
methods, graphics, multtest, AnnotationDbi, annotate
R (>= 2.6.0), tools, methods, utils, Biobase, Biostrings
R (>= 2.0.0), methods, Biobase, annotate, plotrix
R (>= 2.5.0), graph, hgu95av2, RBGL, ALL
R (>= 2.0.0), convert, graph, limma, marray, methods
methods, R (>= 2.5.0), Biobase (>= 1.13.58),
splines, RSQLite, preprocessCore, AnnotationDbi,
affxparser, oligoClasses (>= 0.99.4)
GO, GOstats, YEAST, graph, Category, ppiData (>= 0.1.6)
R (>= 2.1.0), Biobase, RColorBrewer, grid, methods, rrcov
R (>= 2.6.0), Biobase, affy, limma, annotate, ROCR
R (>= 2.3.0), survival, xtable, stats, KernSmooth, MASS, grid, methods,
hexbin, rfcdmin (>= 0.9.0), fields, lattice, locfit, splancs, prada, xgobi
R (>= 2.0.0), affy, genefilter, Biobase, methods, utils, gcrma
R (>= 2.6.0), methods, utils, grid, Biobase(>= 1.15), XML
(>= 0.92-2), annotate
R (>= 2.11.0), tilingArray, aCGH, waveslim, cluster, snapCGH,
snowfall, ff
R (>= 2.10), Biobase, limma, annotate, genefilter
R (>= 2.10),methods,Biobase,limma,affy (>=
1.22),preprocessCore,affycoretools
R (>= 2.8.1), PolynomF, Biostrings, lattice
R (>= 1.8.0), Biobase (>= 2.5.5), multtest, GSEABase
R (>= 2.6.0), BufferedMatrix (>= 1.3.0), methods
R (>= 2.10), methods, Biobase (>= 2.5.5), marray
R (>= 2.0.0), impute(>= 1.8.0), DNAcopy (>= 1.6.0), methods,
Biobase, CGHbase
R (>= 2.10), methods, tools, stats, genefilter
AnnotationDbi (>= 0.1.15), Biobase (>= 1.15.29), methods
R (>= 2.10), gplots, BiocGenerics (>= 0.1.0), biomaRt,
multtest, IRanges, Biostrings, BSgenome,
BSgenome.Ecoli.NCBI.20080805, GO.db, org.Hs.eg.db, limma
R (>= 2.10.0), methods, BiocGenerics, ShortRead
R (>= 2.13.0), Biostrings (>= 2.16), RSQLite (>= 0.9),
IRanges, stats
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7)
R (>= 2.8.0), methods, graphics, stats, utils, abind
BiocGenerics (>= 0.1.3), Biobase (>= 2.15.1), ShortRead (>=
1.11.42), Rsamtools (>= 1.5.75), aroma.light
GenomicRanges (>= 1.5.42), ShortRead, rtracklayer
R (>= 2.12.0), methods, Biobase (>= 2.5.5), GGBase, snpStats,
illuminaHumanv1.db, AnnotationDbi
R (>= 2.14), stats4, GGBase (>= 3.16.1), IRanges,
GenomicRanges, Rsamtools
R (>= 2.6.0), BiocGenerics, Biobase, annotate, methods, graph
R (>= 2.10), Biobase, GSEABase, hgu95a.db
R (>= 2.10.0), igraph0, RCurl, annotate, Biobase (>= 1.12.0),
methods, XML, RSQLite, MASS, rgl, Heatplus, RColorBrewer
R (>= 2.10), MCMCpack, GO.db, breastCancerVDX,
rheumaticConditionWOLLBOLD, hgu133a.db, hgu133plus2.db
R (>= 2.10), methods, Biobase (>= 2.5.5), genefilter
BiocGenerics (>= 0.1.0), IRanges (>= 1.13.10), GenomicRanges
(>= 1.7.17), AnnotationDbi (>= 1.15.39)
R (>= 2.10), methods, RSQLite, DBI (>= 0.2-5), BiocGenerics
(>= 0.1.0), IRanges, GenomeGraphs
R (>= 2.8.0), stats, graphics, grDevices, Biobase, methods
R (>= 2.10), igraph0, GSEABase, BioNet, cellHTS2, RankProd,
methods
R (>= 2.10.0), methods, girafe (>= 1.3.1), genomeIntervals (>=
1.7.1), RColorBrewer
R (>= 2.9.0), Biobase, fdrtool, MASS, survival
R (>= 2.12.0), MASS, Matrix, XML, digest, bitops
R (>= 2.8.0), methods, utils, stats, BiocGenerics (>= 0.1.4)
R (>= 2.0.0), GLAD, ITALICSData, oligo, affxparser,
pd.mapping50k.xba240
R.oo, XML, RCurl, rChoiceDialogs, ENVISIONQuery
R (>= 2.10), Biobase,quantreg,splines,MASS,limma,affy,methods,
SparseM, vsn
R (>= 2.12.0), BiocGenerics (>= 0.1.3), BSgenome
R (>= 2.15), grDevices, graphics, methods, stats, utils
R (>= 2.9), Biobase, MASS, methods, genefilter, rpart, rda,
annotate, cluster, sfsmisc
AnnotationDbi, affy, plotrix, gplots, gmodels, gdata, gtools
R (>= 2.10), methods, BiocGenerics (>= 0.1.3), Biobase (>=
2.15.2), ggplot2, mzR
R (>= 2.13.0), methods, Biobase, xtable, limma, statmod,
lattice, vsn
R (>= 2.14.0), tools, methods, utils, Biobase (>= 1.14.0),
hgu133a.db, annotate
R(>= 2.10.0), stats, RColorBrewer, Biobase, methods, ReadqPCR
R (>= 2.9.0), methods, ShortRead (>= 1.4.0), Biobase, vegan
R (>= 2.7.0), methods, utils, RSQLite, Biobase (>= 1.17.0),
AnnotationDbi (>= 1.3.12)
R (>= 2.10), Category, ScISI (>= 1.3.0), SLGI, ppiStats,
ppiData, annotate (>= 1.17.4)
R (>= 2.10), GO.db, KEGG.db, AnnotationDbi, annaffy, methods,
Biobase (>= 2.5.5)
R (>= 2.11.0), BiocGenerics (>= 0.1.3), IRanges (>= 1.13.10),
GenomicRanges, BSgenome
R (>= 2.6.2), Biobase (>= 2.5.5), LPE, MASS, methods
R (>= 2.9.0), Biobase, lokern (>= 1.0.9), multtest, stats,
methods, annotate
R (>= 2.9.0), methods, PREDA, Biobase, affy, annotate,
gahgu133plus2.db, gahgu133plus2cdf
R (>= 2.12.0), BiocGenerics, Biobase, Biostrings,
BSgenome.Scerevisiae.UCSC.sacCer2,TeachingDemos
R (>= 2.14.0), BiocGenerics (>= 0.1.0),
BSgenome.Celegans.UCSC.ce2, multtest, Biostrings, BSgenome,
ChIPpeakAnno
R (>= 2.12.0), fields, sparseLDA, RNAinteract
R (>= 2.14.1), affy, affydata, methods, parallel
R (>= 2.15), igraph0, RCurl, XML, XMLRPC
R (>= 2.13.0), methods, BiocGenerics (>= 0.1.0), GenomicRanges
(>= 1.7.8)
R (>= 1.9.0), Biobase, AnnotationDbi (>= 1.4.0)
methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix,
grid
R (>= 2.7.0), RmiR.Hs.miRNA, RSVGTipsDevice
R (>= 2.9.0), graphics, grDevices, methods, ShortRead
methods, annotate (>= 1.21.0), graph (>= 1.21.0), Biobase,
RBGL (>= 1.17.0), XML (>= 2.4.0), hypergraph (>= 1.15.2),
AnnotationDbi
methods, IRanges (>= 1.13.30), GenomicRanges (>= 1.7.43),
Biostrings (>= 2.21.12)
R (>= 2.10), GO.db, RpsiXML, annotate, apComplex
methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.4),
GenomicRanges (>= 1.7.43), Biostrings (>= 2.23.2), lattice,
Rsamtools (>= 1.7.42), latticeExtra
R (>= 2.10.0), mclust (>= 3.3.1), Biobase (>= 1.15.13),
fields, hwriter (>= 1.1), RColorBrewer, methods
methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.5),
Rsamtools, hwriter
R (>= 2.10.0), biomaRt, Biobase, genoset
R (>= 2.10.0), Biobase (>= 2.5.5), methods, graphics
R (>= 2.4.0), affy , ath1121501cdf , tinesath1cdf ,
RColorBrewer , methods, grid
methods, graphics, grid, Biobase, AnnotationDbi, annaffy, mpm,
genefilter, limma, multtest, glmnet, a4Preproc, a4Core, gplots
methods, a4Core, a4Preproc, MLInterfaces, ROCR, pamr, glmnet,
varSelRF
a4Base, a4Preproc, a4Classif, a4Core, a4Reporting
R (>= 2.10), cluster, survival, multtest
R (>= 2.7.0), tools, methods, utils, Biobase, affy, affydata
R (>= 2.6.0), affy (>= 1.11.0), Biobase, gcrma, stats,
preprocessCore (>= 1.5.1)
R (>= 2.13.0), methods, Biobase (>= 2.3.3), affycomp
R (>= 2.7), methods, BiocGenerics (>= 0.1.0), Biobase (>=
2.15.1), affy, makecdfenv, Biostrings, hypergraph
R (>= 2.5.0), methods, Biobase, GO.db, KEGG.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.0)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.1.15)
R (>= 2.6.0), tools, methods, utils, parody, Biobase, affy,
lumi
R (>= 2.10.0), AnnotationDbi, KEGG.db, limma, cluster,
GOstats, graphics, methods, stats
methods, Biobase (>= 2.5.5), quantsmooth
limma, MASS, R(>= 2.10), Biobase, methods
R (>= 2.7.0), methods, AnnotationDbi (>= 1.1.28)
R (>= 2.10), RColorBrewer, Biobase, methods, genefilter,
splots, vsn, hwriter, locfit, grid
R (>= 2.15), VariantAnnotation, org.Hs.eg.db, methods,
GGtools, TxDb.Hsapiens.UCSC.hg19.knownGene, parallel
R (>= 2.14.0), Biobase, SQN, fields, RColorBrewer, genefilter
R (>= 2.13.0), Biobase, GGtools, GenomicRanges, hgfocus.db
R (>= 2.10), methods, BiocGenerics (>= 0.1.0), IRanges (>=
1.13.4), GenomicRanges (>= 1.7.7), BSgenome, ShortRead
R (>= 2.13.1),limma, statmod, rgl, lattice, scatterplot3d,
graphics, grDevices, stats, utils, Biobase, tools, methods
R (>= 2.11), Biobase, methods, ff, oligoClasses, snowfall
R (>= 2.14), BiocGenerics (>= 0.1.0), Biobase, IRanges,
GenomicRanges (>= 1.7.8)
R (>= 2.10), methods, Biobase (>= 2.5.5), limma
R (>= 2.10.0), mclust, nor1mix, stats, preprocessCore,
splines, quantreg
R (>= 2.7.0), RSQLite, ggplot2, reshape2
R (>= 2.10), Biobase (>= 2.5.5), tilingArray, GO.db
R (>= 2.3.0), Biobase (>= 1.10.0), RColorBrewer (>= 0.1-3),
xtable, lattice, methods
R (>= 2.13.0), Rsamtools (>= 1.4.3), GenomicRanges, IRanges,
Biostrings, VGAM, methods, graphics
R (>= 2.4.0), KEGG.db, prada, biomaRt, methods
R (>= 2.15.0), utils, GenomicRanges, Biobase, GGBase
graphics, methods, parallel, utils, genomeIntervals (>=
1.12.0), Biobase (>= 2.16.0), BiocGenerics (>= 0.2.0), biomaRt
(>= 2.12.0), edgeR (>= 2.6.10), Biostrings (>= 2.24.1),
BSgenome (>= 1.24.0), DESeq (>= 1.8.3), GenomicRanges (>=
1.8.12), IRanges (>= 1.14.4), Rsamtools (>= 1.8.6), ShortRead
(>= 1.14.4)
methods, isa2, Biobase, AnnotationDbi, Category, genefilter,
DBI
R (>= 2.15.0), methods, Biobase (>= 2.5.5), lattice, GGtools,
GGBase
R(>= 2.5.0),BiocGenerics, methods, mnormt, ellipse, Biobase,
flowCore(>= 1.11.23)
R (>= 2.10.0), methods, BiocGenerics (>= 0.1.3), outliers,
lattice, flowViz, mvoutlier, bioDist, parody, RColorBrewer,
latticeExtra
R (>= 2.10), flowCore (>= 1.10.0), fda (>= 2.2.6), mvoutlier,
cluster, flowWorkspace
R (>= 2.11.0), flowCore, flowViz,flowClust
Cairo, BiocGenerics, methods, RBGL, graph, XML, flowCore,
flowViz, Biobase, IDPmisc, tools,hexbin
R (>= 2.8.0), Biobase, coda, EBarrays, mgcv
R (>= 2.7.0), methods, AnnotationDbi (>= 1.5.24)
R (>= 2.6.0), affy (>= 1.23.2), graphics, methods, stats,
utils, BiocInstaller
R (>= 2.10),Biobase (>= 2.5.5), annotate, lattice
R (>= 2.10), methods, BiocGenerics (>= 0.1.6), Biobase (>=
2.15.1), IRanges (>= 1.13.5), bigmemory, GenomicRanges
R (>= 2.14.0), GGtools (>= 3.11.32), ff, GenomicRanges,
snpStats, GGdata, GenomicFeatures, ChIPpeakAnno, Rsamtools(>=
1.5.35), cheung2010, SNPlocs.Hsapiens.dbSNP.20090506, hmyriB36
R (>= 2.10.0), methods, IRanges (>= 1.3.53), Rsamtools,
ShortRead (>= 1.3.21), intervals (>= 0.13.1), genomeIntervals
(>= 1.7.3), grid
R (>= 2.11.0), BiasedUrn, geneLenDataBase
R (>= 2.14.0), methods, IRanges, GenomicRanges, snpStats,
graph
R (>= 2.10.0), tools, utils, IRanges, Biobase (>= 2.5.5),
Biostrings
R (>= 2.12.2), methods, BiocGenerics (>= 0.1.0), Biobase,
IRanges, MASS, BSgenome, GenomicRanges
R (>= 2.9.0), methods, grid, graph, hypergraph, Rgraphviz
R (>= 2.13.0), flowCore, flowViz, flowStats (>= 1.3.20)
R (>= 2.10), methods, Biobase, annotate, plotrix
R (>= 2.10.1), Rsamtools, TxDb.Hsapiens.UCSC.hg18.knownGene
R (>= 2.10.0), Biobase, stats, methods, plyr
R (>= 2.15.0), Biobase, Rsamtools (>= 0.1.50), BSgenome
R (>= 2.13.2), methods, graphics, fdrtool
R (>= 2.10), convert, graph, limma, marray, methods
lattice, MASS, proto, foreign, gWidgets(>= 0.0-36),
gWidgetsRGtk2(>= 0.0-53), OTUbase, vegan, bpca
R (>= 2.11.0), Biostrings(>= 2.4.8), plotrix,gsubfn,
grid,sqldf
Biobase, methods, R (>= 2.13), scales, reshape2, ggplot2
R (>= 2.13.0), minfi, IlluminaHumanMethylation450kmanifest
methods, BiocGenerics (>= 0.1.0), Biobase (>= 2.15.1),
lattice, reshape, GenomicRanges
R (>= 2.14.1), methods, igraph, graph, minet, qvalue,
parallel, RColorBrewer, Rgraphviz, ggplot2
methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.5), Biobase
(>= 2.15.1), ShortRead, parallel
Biobase, affylmGUI, tkWidgets, IRanges, Rsamtools, Biostrings,
siggenes
R(>= 2.12.0) , methods, AnnotationDbi (>= 1.3.12), PAnnBuilder (>= 1.3.0)
graph, Rgraphviz, RColorBrewer, cMAP, AnnotationDbi, methods
Biobase, MASS, pls, methods, Rcpp (>= 0.8.7)
R (>= 1.8.0), methods, RPostgreSQL (>= 0.1)
R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA
R (>= 2.10), flowCore, flowViz, lattice, latticeExtra
R (>= 2.10.0), Biobase, RColorBrewer, grid, methods, rrcov
R (>= 2.10), Biobase (>= 2.5.5), affy (>= 1.23.4), graphics,
grDevices, methods, stats, utils, mclust
reshape, ggplot2, Biostrings, biovizBase, brew, xtable,
Rsamtools (>= 1.3.28), testthat
R (>= 2.14.0), IRanges, BSgenome,ShortRead, rtracklayer,
RColorBrewer, methods
R (>= 2.11.0), Biostrings, IRanges, BSgenome, methods, seqLogo
R (>= 2.7.0), methods, AnnotationDbi (>= 1.11.8)
R (>= 2.11.0), methods, xmapcore, Biobase, Rsamtools
R (>= 2.4.0), Biobase, annotate, methods
R (>= 2.3.0), methods, baySeq (>= 1.8.1), ShortRead,
GenomicRanges, IRanges
Biobase, CGHbase, corpcor (>= 1.6.2), methods
methods, Biobase, multtest, splines, graphics
R (>= 2.0.0), methods, utils, grDevices, graphics, stats,
BiocGenerics (>= 0.1.12), Biobase, affy (>= 1.33.6),
genefilter, gcrma
R (>= 2.14), randomForest, MAclinical, tspair, pamr, snowfall,
glmpath, penalized, e1071
R (>= 2.3.0), methods, plyr, preprocessCore
R (>= 1.8.0), Biobase, affy, multtest, annaffy, vsn, gcrma,
qvalue
R (>= 2.7.0), methods, utils, BiocGenerics (>= 0.1.13),
Biobase (>= 1.17.0), AnnotationDbi (>= 1.19.15), org.Hs.eg.db
R (>= 2.1.0), methods, Biobase, xcms (>= 1.13.5), igraph
R (>= 2.0.0), impute(>= 1.8.0), DNAcopy (>= 1.6.0), methods,
Biobase, CGHbase (>= 1.15.1), snowfall
BiocGenerics (>= 0.3.2), AnnotationDbi (>= 0.1.15), Biobase
(>= 2.17.8), methods
R (>= 2.10), grid,VennDiagram, BiocGenerics (>= 0.1.0),
biomaRt, multtest, IRanges, Biostrings, BSgenome,
BSgenome.Ecoli.NCBI.20080805, GO.db, org.Hs.eg.db, limma
R (>= 2.14.0), limSolve, pcaMethods, ggplot2, grid
caTools, bitops, methods, isa2, eisa, GO.db, KEGG.db,
AnnotationDbi
R (>= 2.10), GenomicFeatures (>= 1.7.22), Biostrings,
AnnotationDbi, rtracklayer
R (>= 2.14.0), ggplot2, TxDb.Hsapiens.UCSC.hg19.knownGene,
FunciSNP.data
R (>= 2.14), stats4, GGBase (>= 3.19.7), IRanges,
GenomicRanges, Rsamtools
R (>= 2.6.0), BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
annotate, methods, graph
Biobase, ncdf, GWASExactHW, sandwich, gdsfmt
BiocGenerics (>= 0.1.0), IRanges (>= 1.15.35), GenomicRanges
(>= 1.9.66), AnnotationDbi (>= 1.19.36)
R (>= 2.15.0), ShortRead (>= 1.14.4), parallel, hwriter,
Cairo, tools, gmapR (>= 0.99.23), logging
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi,
GenomicFeatures, GO.db, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg19.knownGene
R (>= 2.10.0), survival, Biobase, MASS, methods
R (>= 2.15.0), methods, IRanges, Biostrings
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi,
GenomicFeatures, GO.db, org.Mm.eg.db,
TxDb.Mmusculus.UCSC.mm10.ensGene
R(>= 2.14.0), stats, RColorBrewer, Biobase, methods, ReadqPCR
R (>= 2.14.0), methods, AnnotationDbi (>= 1.16.10),
GenomicFeatures
R (>= 2.14.0), KEGGdzPathwaysGEO, graphics, limma,
AnnotationDbi, Biobase, methods, nlme, GSA,KEGG.db
R(>= 2.15.0), chipseq, IRanges, GenomicRanges
R (>= 2.15.0), BiocGenerics (>= 0.1.0),
BSgenome.Celegans.UCSC.ce2, multtest, Biostrings, BSgenome,
ChIPpeakAnno
R (>= 2.12.0), methods, fields, sparseLDA, RNAinteract
R (>= 2.15.1), affy, affydata, methods, parallel
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi,
GenomicFeatures, GO.db, org.Rn.eg.db,
TxDb.Rnorvegicus.UCSC.rn5.refGene
R (>= 2.14.0), methods, GenomicRanges, baySeq, Rsamtools
R (>= 2.15), methods, igraph, RCurl, XML
methods, IRanges (>= 1.15.35), GenomicRanges (>= 1.9.48),
Biostrings (>= 2.25.6)
R (>= 2.14.0), Biobase (>= 2.6.0), oligo, Biostrings
R (>= 2.10), IRanges, GenomicRanges, BSgenome (>= 1.25.6)
methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.4),
GenomicRanges (>= 1.7.43), Biostrings (>= 2.25.6), lattice,
Rsamtools (>= 1.7.42), latticeExtra
IRanges (>= 1.15.44), GenomicRanges (>= 1.9.52),
VariantAnnotation (>= 1.3.20), methods
limma, tcltk, affy, BiocInstaller, affyio
R (>= 2.15), methods, BiocGenerics, IRanges, GenomicRanges,
parallel, matrixStats
R (>= 2.10.1), Biobase, binom, methods, stats
R (>= 2.13.0), IRanges, methods, Biobase, MASS, graphics,
stats, rgl
R (>= 2.12), BiocGenerics, Biobase, IRanges, GenomicRanges
R (>= 2.10), BiocGenerics (>= 0.3.2), methods, Biobase (>=
2.17.8), limma
R (>= 2.7.0), BiocGenerics (>= 0.3.2), RSQLite, ggplot2,
reshape2, fastcluster, rtracklayer, Gviz
graphics, methods, parallel, utils, genomeIntervals (>=
1.14.0), Biobase (>= 2.18.0), BiocGenerics (>= 0.4.0), biomaRt
(>= 2.14.0), edgeR (>= 3.0.0), Biostrings (>= 2.26.0), BSgenome
(>= 1.26.0), DESeq (>= 1.10.0), GenomicRanges (>= 1.10.0),
IRanges (>= 1.16.0), Rsamtools (>= 1.10.0), ShortRead (>=
1.16.0)
BiocGenerics (>= 0.3.2), methods, isa2, Biobase (>= 2.17.8),
AnnotationDbi, Category (>= 2.23.4), genefilter, DBI
R (>= 2.7.0), flowCore (>= 1.5.17), lattice, grDevices
R (>= 2.6.0), affy (>= 1.23.2), graphics, methods, stats,
utils
R (>= 2.10), XML, RCurl, GenomicRanges, IRanges, Biostrings
R (>= 2.14.0), methods, IRanges, GenomicRanges, snpStats,
graph, BiocGenerics
R(>= 2.15),gdata, scatterplot3d, Biostrings, multtest
R (>= 2.10), grid, IRanges, Biobase (>= 2.5.5), org.Hs.eg.db
methods, BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
lattice, reshape, GenomicRanges, Biostrings, utils
R (>= 2.7.0), methods, AnnotationDbi (>= 1.18.1)
R (>= 2.0), e1071 (>= 1.5), graph (>= 1.24), plotrix, limma,
cluster (>= 1.11), statmod, Hmisc, Rgraphviz
R (>= 2.15.0), dmt, igraph0, ggplot2, graph, mclust, methods,
minet, parallel, qvalue, RColorBrewer, reshape, Rgraphviz
R (>= 2.13.0), Biostrings (>= 2.25.12), IRanges(>= 1.15.42),
GenomicRanges, ShortRead(>= 1.15.9), xtable, methods
R (>= 2.6.0), BiocGenerics (>= 0.3.2), methods, utils
R (>= 2.10), methods, GenomicRanges (>= 1.9.6)
R (>= 2.3.0), methods, baySeq (>= 1.11.1), ShortRead,
GenomicRanges, IRanges
Biobase, CGHbase, methods, mvtnorm, penalized
R (>= 2.7.0), methods, AnnotationDbi (>= 1.18.3)
oligo, oligoClasses, Biobase, Biostrings, GenomeGraphs
R (>= 2.7.0), methods, utils, BiocGenerics (>= 0.5.4), Biobase
(>= 1.17.0)
R (>= 2.15.2), methods, IRanges (>= 1.17.24), GenomicRanges,
Formula
methods, R (>= 2.15.0), BSgenome, BSgenome.Mmusculus.UCSC.mm9
R (>= 2.15.0), RBGL, graph, methods, hash, ggplot2, RCurl,
Rgraphviz
R (>= 2.10), grid,VennDiagram, BiocGenerics (>= 0.1.0),
biomaRt, multtest, IRanges, Biostrings, BSgenome,
BSgenome.Ecoli.NCBI.20080805, GO.db, org.Hs.eg.db, limma,
GenomicFeatures
GenomicRanges, IRanges, Biobase, lattice, Rcpp (>= 0.10.1),
RcppArmadillo (>= 0.3.4.4)
R (>= 2.10), affy, limma, biomaRt, ArrayExpress, GEOquery,
DrugVsDiseasedata, cMap2data, qvalue
GenomicFeatures (>= 1.7.22), Biostrings, AnnotationDbi,
BSgenome.Hsapiens.UCSC.hg18
GenomicFeatures (>= 1.7.22), Biostrings, AnnotationDbi,
BSgenome.Hsapiens.UCSC.hg19
R (>= 2.10.0), igraph, RCurl, annotate, Biobase (>= 1.12.0),
methods, XML, RSQLite, MASS, Heatplus, RColorBrewer
BiocGenerics (>= 0.1.0), IRanges (>= 1.17.13), GenomicRanges
(>= 1.11.11), AnnotationDbi (>= 1.19.36)
R(>= 2.10.0), survival, coin, fpc, clusterRepro, impute,
randomForestSRC, sm, sigaR, Biobase
RColorBrewer, gplots, geneplotter, splots, limma, vcd,
LSD,EBImage
R (>= 2.15.0), ShortRead (>= 1.14.4), parallel, hwriter,
Cairo, tools, rtracklayer, gmapR (>= 1.1.10)
R (>= 2.10.0), methods, GenomicRanges, IRanges, RColorBrewer
R (>= 2.8.0), methods, utils, stats, BiocGenerics (>= 0.5.6)
R (>= 2.10), AnnotationDbi (>= 1.13.18),
BSgenome.Hsapiens.UCSC.hg19, Biostrings, GenomicFeatures,
GenomicRanges, Homo.sapiens
R (>= 2.10), Biobase, plyr, ggplot2, scales, foreach, xtable,
biomaRt, gtools, GOstats, cluster, marray, mclust,
RColorBrewer, colorspace, igraph, Rgraphviz, graph, annotate,
Hmisc, fastICA, JADE, methods
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi,
GenomicFeatures, GO.db, org.Mm.eg.db,
TxDb.Mmusculus.UCSC.mm10.knownGene
R(>= 2.14.0), stats, RColorBrewer, Biobase, methods, ReadqPCR,
qpcR
R (>= 2.15.0), parallel, GenomicRanges, Rbowtie (>= 0.99.0)
R (>= 2.15), methods, IRanges, GenomicRanges, rtracklayer,
Rsamtools
methods, graph, boot, KEGGREST, KEGGgraph, Rgraphviz
R (>= 2.15.0), affy, affydata, methods, parallel
methods, IRanges (>= 1.15.35), GenomicRanges (>= 1.11.38),
Biostrings (>= 2.25.6)
R (>= 2.12), methods, qvalue, lattice, limma
methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.17.18),
GenomicRanges (>= 1.11.18), Biostrings (>= 2.25.6), lattice,
Rsamtools (>= 1.7.42), latticeExtra
R (>= 2.14.0), lars, DNAcopy, foreach, methods, rebmix,
GenomicRanges, IRanges, doParallel
BiocGenerics, IRanges (>= 1.17.43), GenomicRanges (>=
1.11.45), GenomicFeatures, Rgraphviz (>= 2.3.7)
R (>= 2.8.0), methods, BiocGenerics, GenomicRanges (>=
1.11.29), Rsamtools (>= 1.11.26), IRanges (>= 1.17.4)
IRanges (>= 1.17.10), GenomicRanges (>= 1.9.52),
VariantAnnotation (>= 1.3.20), methods
limma, tcltk, affy, BiocInstaller, affyio, tkrplot,
affyPLM, R2HTML, xtable, gcrma, affyPLM, AnnotationDbi
R (>= 2.10), IRanges, GenomicRanges, foreach, iterators,
methods, parallel
R (>= 2.14.1), Biobase, IRanges, methods, gtools,
GenomicRanges, Rsamtools, plyr, gaga
Biobase, GenomicRanges, Rsamtools, methods, org.Hs.eg.db,
org.Mm.eg.db, AnnotationDbi, BSgenome.Hsapiens.UCSC.hg19,
TxDb.Hsapiens.UCSC.hg19.knownGene
R (>= 2.13.0), IRanges, methods, Biobase, MASS, graphics,
stats, rgl, changepoint
R (>= 2.11), Biobase, methods, ff, oligoClasses, snow
R (>= 2.15.1), methods, ggplot2, changepoint, wavethresh,
tseries, pvclust, fBasics, grid, reshape, scales
isa2, Biobase (>= 2.17.8), AnnotationDbi, methods
R (>= 2.12.0), methods, Biobase, IRanges, GenomicRanges
R(>= 2.5.0),methods, Biobase, graph, RBGL,ellipse, flowViz,
mnormt, corpcor, flowCore(>= 1.11.23), clue
R (>= 2.16.0),Rcpp (>= 0.9.9),Cairo, BiocGenerics, methods,
RBGL, graph, XML, flowCore (>= 1.25.9), flowViz (>= 1.23.1),
Biobase, IDPmisc, tools,hexbin,gridExtra,Rgraphviz,ncdfFlow(>=
1.5.19)
R (>= 2.10.1), Biobase (>= 2.5.5), EBarrays, minet, methods
R (>= 2.11), XML, RCurl, GenomicRanges, IRanges, Biostrings
R (>= 2.14.0), GGtools (>= 3.11.32), ff, GenomicRanges,
snpStats, GGdata, GenomicFeatures, ChIPpeakAnno, Rsamtools(>=
1.5.35), cheung2010, SNPlocs.Hsapiens.dbSNP.20120608, hmyriB36
R (>= 2.14.1), methods, limma, pls, stemHypoxia
R(>= 3.0), Biobase, limma, matrixStats, methods, RColorBrewer,
gplots
R (>= 2.13.0), minfi, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kannotation.ilmn.v1.2
R (>= 2.7.0), methods, AnnotationDbi (>= 1.22.5)
R (>= 2.15.1), methods, grImport, grid, MotIV, ade4
R (>= 2.15.1), dmt, igraph0, infotheo, ggplot2, graph, mclust,
methods, minet, parallel, qvalue, RColorBrewer, reshape,
Rgraphviz
Biobase, affylmGUI, tkWidgets, IRanges, Rsamtools, Biostrings,
siggenes, chimera
R (>= 2.10), methods, GenomicRanges (>= 1.11.12)
R (>= 2.4.0), AnnotationDbi, Biobase, methods, SparseM
R (>= 2.15.0), BiocGenerics, methods, plyr, preprocessCore
R (>= 2.10), limma, methods, matrixStats, methylumi, lumi,
IlluminaHumanMethylation450k.db, ROC
R (>= 2.14.0), methods, mzR (>= 1.1.6), BiocGenerics, Biobase
R (>= 3.0.0), DNAcopy, methods, Rsamtools, VariantAnnotation,
parallel, rjags, ggplot2
BiocGenerics, AnnotationDbi, Biobase, Matrix, GO.db, methods
R (>= 2.15.0), RBGL, graph, methods, hash, ggplot2, RCurl,
Rgraphviz, XML
R (>= 3.0.1), minfi, ChAMPdata, Illumina450ProbeVariants.db
R (>= 2.13.0), Biostrings (>= 2.29), RSQLite (>= 0.9),
IRanges, stats, XVector, parallel
GenomicRanges, IRanges, Rcpp (>= 0.10.1), RcppArmadillo (>=
0.3.4.4)
BiocGenerics (>= 0.7.5), Biobase (>= 2.21.7), locfit, lattice
R (>= 2.15), Fletcher2013a, RTN, biomaRt,VennDiagram,RedeR (>=
1.8.1)
BiocGenerics (>= 0.1.0), IRanges (>= 1.17.13), GenomicRanges
(>= 1.13.16), AnnotationDbi (>= 1.23.14)
R (>= 2.10.0), RColorBrewer, gplots, geneplotter, splots,
limma, vcd, LSD,EBImage
R (>= 3.0.0), ShortRead (>= 1.14.4), parallel, BiocParallel,
hwriter, Cairo, tools, rtracklayer, gmapR (>= 1.1.10)
R (>= 2.15.0), methods, GenomicRanges, IRanges, Matrix,
RColorBrewer
R (>= 3.0.0), affy, Biobase, boot, clue, cluster, genefilter,
geneplotter, gplots, grid, gtools, KEGGREST, lattice,
latticeExtra, MASS, mouse4302.db, RColorBrewer, xtable
R (>= 2.8.0), methods, utils, stats, BiocGenerics (>= 0.7.7)
R (>= 2.10), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), ggplot2, mzR
R (>= 2.7.0), methods, AnnotationDbi (>=
1.21.19),RSQLite,utils
R (>= 2.15.0), methods, IRanges, biomaRt, BiocGenerics
R (>= 2.14.0),flowCore,flowViz,ncdfFlow,flowWorkspace (>=
3.8.37), data.table,reshape
R (>= 2.15.0), parallel, GenomicRanges (>= 1.13.3), Rbowtie
R (>= 2.12.0), BiocGenerics, Biobase, Biostrings (>= 2.29.2),
BSgenome.Scerevisiae.UCSC.sacCer2,TeachingDemos
R (>= 2.14.1), methods, rJava, ggplot2, GO.db, graph,
Category, GOstats, RBGL
R (>= 3.0.0), methods, BiocGenerics (>= 0.8.0)
methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix,
grid, lattice
R (>= 2.10), pracma, reshape, plotrix, microRNA, biomaRt,
Biostrings, Biobase, DBI
methods, IRanges (>= 1.19.11), GenomicRanges (>= 1.13.35),
XVector, Biostrings (>= 2.29.7)
R (>= 2.14.0), Biobase (>= 2.6.0), oligo, Biostrings,
GEOquery, affy, affyio, foreach
R (>= 2.14.0), png, sqldf, plyr, igraph, RCurl, plotrix,
methods
Biobase, BiocGenerics, DESeq, biomaRt, foreach
methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.19.34),
GenomicRanges (>= 1.13.43), Biostrings (>= 2.29.18), lattice,
Rsamtools (>= 1.13.1)
BiocGenerics, IRanges (>= 1.17.43), GenomicRanges (>= 1.13.5),
GenomicFeatures, Rgraphviz (>= 2.3.7)
R (>= 2.15), methods, DESeq, edgeR, baySeq, ROC
IRanges (>= 1.19.34), GenomicRanges (>= 1.13.43),
VariantAnnotation (>= 1.7.35), methods
R (>= 2.15.0), rnaSeqMap (>= 2.17.1), knitr, rgl, ggplot2,
gplots, parallel, doParallel, foreach,
VariantAnnotation,genefilter,statmod,xtable
R (>= 2.10), IRanges, GenomicRanges, foreach, iterators,
methods, parallel, locfit
R (>= 2.14.0), Biobase, binom, methods, stats
Biobase, GenomicRanges (>= 1.13.3), Rsamtools (>= 1.13.1),
methods, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi,
BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene
R (>= 2.15), BiocGenerics (>= 0.1.0), BSgenome,
BSgenome.Drerio.UCSC.danRer7, GenomicRanges, seqinr, e1071
R (>= 3.0.1), IRanges, AnnotationDbi, biomaRt
R (>= 3.0.1), methods, biomaRt, grImport, grid, motifStack
R (>= 2.13.0), Rsamtools (>= 1.4.3), GenomicRanges, IRanges,
Biostrings, VGAM, methods, graphics, VariantAnnotation (>=
1.5.0), parallel
R (>= 3.0.1), methods, Biobase, GenomicRanges (>= 1.13.47),
Rsamtools, GenomicFeatures (>= 1.0.0), rtracklayer
R (>= 2.15.0), methods, Biobase, rrcov, flowCore
R(>= 2.5.0),methods, Biobase, graph, RBGL,ellipse, flowViz,
mnormt, corpcor, flowCore, clue
R (>= 2.10), flowCore, fda (>= 2.2.6), mvoutlier, cluster,
flowWorkspace
R (>= 2.10), methods, Biobase, BiocGenerics, lattice, annotate
R (>= 2.10), BiocGenerics (>= 0.1.6), Biobase (>= 2.15.1),
IRanges, GenomicRanges
R (>= 2.14.0), plyr, ggbio, GenomicRanges
R (>= 2.10), methods, BiocGenerics, grid
R (>= 2.10), grid, IRanges, GenomicRanges, Biobase (>= 2.5.5),
org.Hs.eg.db
Biobase, methods, R (>= 2.13), scales, reshape2, ggplot2,
matrixStats
R (>= 2.13.0), minfi, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19
methods, BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
lattice, reshape, GenomicRanges, Biostrings, utils, bumphunter
(>= 1.1.9)
R (>= 2.14.0), minpack.lm, MASS, parallel, mitoODEdata,
KernSmooth
R (>= 2.15), Biostrings (>= 2.26), IRanges, seqLogo, parallel,
methods, grid, graphics, BSgenome, XVector,
BSgenome.Hsapiens.UCSC.hg19
R (>= 2.15.1), dmt, igraph, infotheo, ggplot2, graph, mclust,
methods, minet, parallel, qvalue, RColorBrewer, reshape,
Rgraphviz
Biobase, affylmGUI, tkWidgets, IRanges, Rsamtools (>= 1.13.1),
Biostrings, siggenes, chimera
R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA,
ggplot2, gridExtra
R (>= 2.10), Biobase, RColorBrewer, grid, methods, rrcov
R (>= 2.13.0), BiocGenerics, IRanges (>= 1.19.5), XVector,
Biostrings (>= 2.29.2), GenomicRanges, ShortRead (>= 1.15.9),
xtable, methods
shiny (>= 0.5), rTRM, MotifDb, org.Hs.eg.db, org.Mm.eg.db
Rsamtools, GenomicRanges, IRanges, data.table, methods,
parallel
R (>= 2.11.0), methods, Biobase, Rsamtools
R (>= 2.10), methods, GenomicRanges (>= 1.13.3)
R (>= 2.3.0), methods, baySeq (>= 1.15.4), ShortRead,
GenomicRanges, IRanges
R (>= 2.15.0), methods, cummeRbund, rtracklayer, VennDiagram,
RColorBrewer, plyr
methods,rbamtools,refGenome (>= 1.1.2),doBy,Biobase,Biostrings
(>= 2.28.0),seqLogo
R (>= 2.14), randomForest, MAclinical, tspair, pamr, snowfall,
glmpath, penalized, e1071, Biobase
R (>= 2.15.0), methods, limma, sigPathway, samr, anota, DESeq,
edgeR, RankProd, topGO, org.Hs.eg.db, GOSemSim, Heatplus,
gplots, plotrix
GenomicAlignments, GenomicRanges, R (>= 3.0.0)
R (>= 2.7.0), methods, utils, BiocGenerics (>= 0.5.4), Biobase
(>= 1.17.0), GenomeInfoDb(>= 0.99.17)
R (>= 3.0.0), Biostrings, ShortRead, caTools, GenomicRanges
methods, utils, graphics, stats, parallel
R (>= 2.10), biovizBase, GenomicRanges, IRanges, ggbio
R (>= 3.0.0), DNAcopy, methods, Rsamtools, VariantAnnotation,
parallel, rjags, ggplot2, gridExtra
COPDSexualDimorphism.data, NCBI2R, RColorBrewer, beeswarm,
limma, GenomicRanges, gplots, gtools
R (>= 3.0.1), BiocGenerics, Biostrings, BSgenome
R (>= 2.10), grid,VennDiagram, biomaRt, IRanges, Biostrings
Biobase, minfi, DNAcopy, preprocessCore, BiocGenerics
R (>= 2.13.0), Biostrings (>= 2.31.9), RSQLite (>= 0.9),
stats, parallel
Biobase, GenomicRanges, IRanges, DESeq2 (>= 1.3.69),
BiocParallel
R (>= 2.15.0), GenomicRanges, limma, GenomicAlignments
R (>= 2.15), Fletcher2013a, biomaRt, VennDiagram, RTN (>=
1.1.2), RedeR (>= 1.8.1)
R (>= 2.15.1), methods, utils, stats, GenomicRanges,
Biostrings, BSgenome, data.table
shiny, sp, gplots, ggplot2, reshape2, RColorBrewer, rhdf5
R (>= 3.0.0), igraph, RCurl, annotate, Biobase (>= 1.12.0),
methods, XML, RSQLite, MASS, Heatplus, RColorBrewer
BiocGenerics (>= 0.1.0), IRanges (>= 1.17.13), GenomicRanges
(>= 1.15.25), AnnotationDbi (>= 1.25.7)
R (>= 3.1.0), methods, BiocGenerics, BiocParallel, Rsamtools,
rtracklayer (>= 1.23.16)
R (>= 2.10.0), methods, grid, BiocGenerics (>= 0.1.4)
R (>= 2.15.0), methods, IRanges, GenomicRanges
R (>= 3.0.0), affy, Biobase, boot, clue, cluster, genefilter,
geneplotter, gplots, gtools, KEGGREST, MASS, mouse4302.db,
RColorBrewer, xtable
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.9.1)
R (>= 3.0.2), MASS, plyr, reshape, Biobase, ggplot2
R (>= 3.0.0), caret, DESeq2, Biobase, limma, randomForest,
edgeR
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), ggplot2, mzR
parallel, GenomicRanges (>= 1.13.3), Rbowtie
R (>= 2.12.0), Biobase, Biostrings, GenomicRanges
R (>= 2.14.1), methods, graph, GOstats, ggplot2
R (>= 2.15), methods, IRanges, GenomicRanges, Rsamtools,
GenomicAlignments, rtracklayer
R (>= 2.15.0), methods, IRanges, PSICQUIC, AnnotationHub,
RCurl
R (>= 2.14.0), Biobase (>= 2.6.0), oligo, Biostrings,
GEOquery, affy, affyio, foreach, sva
VariantAnnotation (>= 1.9.15), RSQLite (>= 0.11.0)
BiocGenerics (>= 0.1.0), BiocParallel, Biostrings (>=
2.31.14), Rsamtools (>= 1.13.1), GenomicAlignments (>= 0.99.6)
BiocGenerics, IRanges (>= 1.17.43), GenomicRanges (>=
1.15.12), GenomicFeatures, GenomicAlignments (>= 1.0.3),
Rgraphviz (>= 2.3.7)
R (>= 2.15), methods, DESeq, DESeq2, edgeR, baySeq, ROC
R (>= 2.15.2), methods, BiocGenerics, Biobase
R (>= 3.0.0), methods, BiocGenerics (>= 0.9.1)
R (>= 2.14.1), Biobase, IRanges, methods, GenomicRanges
Biobase, GenomicRanges (>= 1.13.3), Rsamtools (>= 1.13.1),
GenomicAlignments, methods, AnnotationDbi, org.Hs.eg.db,
BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene
R (>= 3.0.1), methods, Biobase, GenomicRanges (>= 1.13.47)
methods, WGCNA, LiquidAssociation, parallel, stats
R (>= 2.10.0), methods, BiocGenerics, outliers, lattice,
flowViz, mvoutlier, bioDist, parody, RColorBrewer, latticeExtra
R (>= 3.0.0), compiler, GA, graph, heatmap.plus, png,
Rgraphviz
methods, BiocGenerics, ggplot2 (>= 1.0.0)
cluster, gplots, diptest, Biobase, R (>= 3.0.2),
R (>= 3.0.1), fdrtool, Category, BiocGenerics, methods,
cummeRbund, org.Hs.eg.db, MeSH.db, MeSH.AOR.db, MeSH.PCR.db,
MeSHDbi, org.MeSH.Hsa.db, org.MeSH.Aca.db, org.MeSH.Atu.K84.db,
org.MeSH.Bsu.168.db, org.MeSH.Syn.db
R (>= 2.13.0), EDASeq, DESeq, limma, qvalue
Biobase, methods, R (>= 2.13), scales, reshape2, ggplot2,
matrixStats, minfi
methods, BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
lattice, GenomicRanges, Biostrings, utils, bumphunter (>=
1.1.9)
Biobase, affylmGUI, tkrplot, tkWidgets, IRanges, Rsamtools (>=
1.13.1), Biostrings, siggenes, chimera
R (>= 2.15), MSnbase (>= 1.7.23), MLInterfaces (>= 1.37.1),
methods, Rcpp (>= 0.10.3), BiocParallel
R (>= 3.0), Biobase (>= 2.5.5), affy (>= 1.41.3), graphics,
grDevices, methods, stats, utils, mclust, oligo,
R (>= 2.13.0), BiocGenerics, IRanges (>= 1.21.10), XVector (>=
0.3.2), Biostrings (>= 2.31.3), GenomicRanges, ShortRead (>=
1.15.9), xtable, methods
R (>= 2.11.0), methods, Biobase, Rsamtools, GenomicAlignments
R (>= 2.10), methods, GenomicRanges (>= 1.15.26)
R (>= 2.14.0), methods, BiocGenerics, Biostrings, IRanges,
plyr, STRINGdb, tcltk
rTANDEM (>= 1.3.5), shiny, mixtools, methods, xtable
R (>= 3.1.0), methods, GenomicRanges, grid, gWidgetstcltk
R (>= 2.4.0), methods, graphics, stats, utils
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GSEABase,
snpMatrix, RSQLite
R (>= 2.6.0), methods, Biobase (>= 1.11.41), GGBase, GGtools,
snpMatrix, illuminaHumanv1.db, AnnotationDbi
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase, hgfocus.db,
geneplotter(>= 1.11.8), snpMatrix, mgu74av2.db, RColorBrewer,
RSQLite, Biostrings
R (>= 2.7.0), methods, AnnotationDbi (>= 1.1.35)
R (>= 2.6.0), methods, AnnotationDbi, Biobase, annotate
R (>= 2.1), Biobase, MASS, methods, genefilter, rpart, rda, annotate
R (>= 2.5.0), tools, methods, utils, Biobase (>= 1.14.0), hgu133a.db, annotate
ScISI (>= 1.3.0), SLGI, ppiStats, ppiData, org.Sc.sgd.db, KEGG.db, GO.db
graphics, methods, Biobase (>= 1.14.1), genefilter, geneplotter, limma, vsn, RColorBrewer, SparseM (>= 0.7.0)
Biobase, XML (>= 1.9), graph, hypergraph, RBGL, methods
R (>= 2.6.0), ScISI, lattice, methods, org.Sc.sgd.db, GO.db
methods, apComplex, GO, GOstats, graph, RBGL, Rgraphviz,
YEAST, xtable, Rintact (>= 1.1.1)
R (>= 2.6.0), Biobase, methods, graphics
R (>= 2.6.0), affy (>= 1.11.0), Biobase, methods, gcrma, stats, preprocessCore (>= 1.1.7)
affy, limma, GOstats, biomaRt, gcrma, Biobase, annotate, xtable, annaffy, AnnotationDbi
R (>= 2.7), methods, Biobase, affy, matchprobes, makecdfenv, Biostrings, hypergraph
R (>= 2.6.0), Biobase (>= 1.15.13), geneplotter (>= 1.15.2), genefilter(>= 1.17.12), vsn (>= 3.4.8), RColorBrewer, affyPLM, simpleaffy, lattice, latticeExtra, grid, beadarray
graph, geneplotter, Rgraphviz, Biobase, fibroEset, hgu95av2.db, methods
R(>= 2.5.0), methods, mnormt, mclust, ellipse, flowCore
R (>= 2.7.0), methods, rrcov, feature, Biobase
R (>= 2.4.0), outliers, lattice, flowViz
R (>= 2.7.0), flowCore (>= 1.5.17), RColorBrewer, lattice, latticeExtra
R (>= 2.7.0), methods, AnnotationDbi (>= 1.2.2)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.1.34)
R (>= 2.6.0), methods, Biobase, affy, lumi
methods, R (>= 2.5.0), Biobase (>= 1.13.58),
splines, RSQLite, preprocessCore, AnnotationDbi,
affxparser, oligoClasses (>= 1.1.18)
R (>= 2.4.0), methods, graph, SparseM, GO.db, Biobase, annotate
graph, Rgraphviz, RColorBrewer, cMAP, AnnotationDbi
GO, GOstats, YEAST, graph, Category, ppiData (>= 0.1.6), ScISI (>= 1.11.1), lattice, grid,
RColorBrewer, Biobase, AnnotationDbi, methods
R (>= 2.4.0), SparseM, GO, annotate, Biobase
R (>= 2.7.0), affy, Biobase, graphics, grDevices, limma, methods, stats, utils, xtable
R (>= 1.8.0), Biobase, multtest, GSEABase
R (>= 1.8.0), Biobase, utils, lattice, cluster, methods
R (>= 2.6.0), methods, Biobase (>= 1.11.41), GGBase,
snpMatrix, illuminaHumanv1.db, AnnotationDbi
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase (>= 2.99.0),
GSEABase, geneplotter(>= 1.11.8), snpMatrix(>= 1.5.4), RColorBrewer,
RSQLite, Biostrings, rtracklayer, rpart
R (>= 2.7.0), methods, AnnotationDbi (>= 1.3.11)
R (>= 2.6.0), methods, AnnotationDbi, Biobase, annotate, graph
R (>= 2.0.0), GLAD, ITALICSData, oligo, affxparser, pd.mapping50k.xba240
R (>= 2.1), Biobase, MASS, methods, genefilter, rpart, rda, annotate, cluster
R (>= 2.6.2), Biobase, LPE, MASS, methods
annotate, XML (>= 1.9-0), Biobase, graph, hypergraph, RBGL, methods
R (>= 2.4), fields, globaltest, marray, quantsmooth, clac, multtest
R (>= 2.6.0), Biobase (>= 1.15.19), methods, oligoClasses (>= 1.1.13), graphics
methods, apComplex, GO.db, GOstats, graph, RBGL, Rgraphviz,
org.Sc.sgd.db, xtable, RpsiXML
methods, IRanges (>= 0.99.29), Biostrings (>= 2.9.90),
Biobase (>= 2.1.3), lattice
R (>= 2.6.0), SNPchip (>= 1.3.21), oligoClasses (>= 1.1.10), Biobase, methods
R (>= 2.7.0), methods, AnnotationDbi (>= 1.3.13)
R (>= 2.6.0), tools, methods, utils, parody, Biobase, affy, lumi
R (>= 2.6.0), Biobase (>= 1.15.13), geneplotter (>= 1.15.2), genefilter(>= 1.17.12), vsn (>= 3.4.8), RColorBrewer, affyPLM, simpleaffy, lattice, latticeExtra, grid, beadarray, methods, marray
limma, Biobase, methods, geneplotter, hwriter, sma
R (>= 2.0), affy, genefilter, RColorBrewer, RMySQL (>= 0.6-0), DBI, methods
R(>= 2.5.0), methods, mnormt, mclust, ellipse, Biobase, flowCore
R (>= 2.4.0), outliers, lattice, flowViz, methods
R (>= 2.7.0), flowCore (>= 1.5.17), RColorBrewer, lattice, latticeExtra,methods
Biobase, methods, lattice, annotate, graphics
R (>= 2.7.0), methods, AnnotationDbi (>= 1.3.9)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.4.0)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.3.12)
R (>= 2.5.0), graph, hgu95av2.db, RBGL, ALL
R (>= 2.4.0), annotate, affy, Biobase (>= 1.12.0), mgcv (>= 1.4-0), methods, preprocessCore, RSQLite
Biobase, affylmGUI, tkWidgets, GOstats, AnnotationDbi
R (>= 2.4.0), methods, graph, Biobase, AnnotationDbi, SparseM, GO.db, annotate
GO.db, GOstats, org.Sc.sgd.db, graph, Category, ppiData (>= 0.1.6), ScISI (>= 1.13.2), lattice, grid, RColorBrewer, Biobase, AnnotationDbi, methods
R (>= 2.6.0), Biobase, affy, graphics, grDevices, methods, stats, utils
R (>= 2.4.0), SparseM, annotate, Biobase, methods
R (>= 2.6), Biobase, methods, utils, affy (>= 1.16), affxparser
R (>= 2.6.0), Biobase, limma, annotate, genefilter
R (>= 2.4.0), methods, graphics, stats, utils, abind
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GSEABase,
snpMatrix(>= 1.7.6), RSQLite
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase (>= 3.2.17),
GSEABase, snpMatrix(>= 1.7.3), RColorBrewer, RSQLite, Biostrings,
rpart, annaffy
R (>= 2.7.0), methods, AnnotationDbi (>= 1.5.22)
AnnotationDbi, GO.db, org.Hs.eg.db, org.Dm.eg.db, org.Mm.eg.db, org.Rn.eg.db, org.Sc.sgd.db
grDevices, graphics, methods, stats, utils, MASS, drc
R (>= 2.7.0), methods, utils, RSQLite,
Biobase (>= 1.17.0), AnnotationDbi (>= 1.3.12)
Category, ScISI (>= 1.3.0), SLGI, ppiStats, ppiData, annotate (>= 1.17.4)
methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix
methods, IRanges (>= 1.1.55), Biostrings (>= 2.11.25),
BSgenome (>= 1.1.14), lattice
R (>= 2.6.0), affy (>= 1.11.0), Biobase, methods, gcrma, stats, preprocessCore (>= 1.5.1)
Biobase (>= 1.13.16), affy, simpleaffy, xtable, affyPLM, RColorBrewer, genefilter, lattice
R (>= 2.7.0), methods, AnnotationDbi (>= 1.6.0)
R(>= 2.8.1) , methods, AnnotationDbi (>= 1.3.12), PAnnBuilder (>= 1.3.0)
R (>= 2.6.0), methods, Biobase, lattice, GGtools, GGBase, snpMatrix
methods, graphics, xcms, SparseM, gcspikelite
R (>= 2.4.0), outliers, lattice, flowViz, methods, mvoutlier,bioDist,parody,RColorBrewer,latticeExtra
R (>= 2.7.0), methods, AnnotationDbi (>= 1.5.23)
R (>= 2.8.0), intervals (>= 0.12.2), Biobase, methods
R (>= 2.6.0), tools, utils, IRanges, Biobase, Biostrings
R (>= 2.8.0), oligoClasses (>= 1.5.22), preprocessCore
Biobase, affylmGUI, tkWidgets, GOstats, AnnotationDbi, preprocessCore
R(>= 2.8.0) , methods, AnnotationDbi (>= 1.3.12), PAnnBuilder (>= 1.3.0)
R (>= 2.3.0), fields, hexbin, lattice, locfit, methods, prada,
rfcdmin (>= 0.9.0), splancs, stats, survival, xgobi, xtable
R (>= 2.9.0), Biobase,limma,affy (>= 1.22),preprocessCore
R (>= 2.4.0), methods, Biobase (>= 2.5.5), marray
R (>= 2.0.0), impute(>= 1.8.0), DNAcopy (>= 1.6.0), methods, Biobase, CGHbase
biomaRt, multtest, IRanges, Biostrings, BSgenome,BSgenome.Ecoli.NCBI.20080805, GO.db,org.Hs.eg.db, limma
R (>= 2.7.0), methods, Biobase (>= 2.5.5), GSEABase,
snpMatrix(>= 1.7.6), RSQLite
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Hs.eg.db
R (>= 2.6.0), methods, Biobase (>= 2.5.5), GGBase,
snpMatrix, illuminaHumanv1.db, AnnotationDbi
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase (>= 3.2.17),
GSEABase, snpMatrix(>= 1.7.3), RColorBrewer, RSQLite, Biostrings,
rpart
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16)
R (>= 2.6.0), Biobase, annotate, methods, graph
R (>= 2.8.0), igraph, RCurl, annotate, Biobase (>= 1.12.0), methods, XML, RSQLite, MASS
R (>= 2.5.0), methods, Biobase (>= 2.5.5), genefilter
methods, XML (>= 2.3-0), graph, Rgraphviz (>= 1.22.0)
affy (>= 1.23.4), Biobase (>= 2.5.5), lumi, methods
grDevices, graphics, methods, stats, utils
R (>= 2.9), Biobase, MASS, methods, genefilter, rpart, rda, annotate, cluster
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Mm.eg.db
AnnotationDbi, methods, Biobase (>= 2.5.5)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.8.0), org.Hs.eg.db
methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix, grid
R (>= 2.9.0), mclust, graphics, grDevices, methods, ShortRead
methods, annotate (>= 1.21.0), graph (>= 1.21.0), Biobase, RBGL (>= 1.17.0), XML (>= 2.4.0), hypergraph (>= 1.15.2), AnnotationDbi
R (>= 2.6.0), Biobase (>= 2.5.5), methods, oligoClasses (>= 1.7.8), graphics
methods, IRanges (>= 1.3.93), Biostrings (>= 2.13.52),
BSgenome (>= 1.13.14), lattice
R (>= 2.10.0), mclust (>= 3.3.1), Biobase (>= 1.15.13), fields, hwriter (>= 1.1), RColorBrewer, methods
R (>= 2.9.0), Biobase (>= 2.5.5), methods, graphics
R (>= 1.8.0), cluster, survival, multtest
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Rn.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.At.tair.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Bt.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Cf.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Ce.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Gg.eg.db
methods, IRanges (>= 1.3.77), BSgenome, ShortRead, lattice
R (>= 2.10.0),limma, statmod, scatterplot3d, graphics, grDevices, stats, utils, Biobase, tools, methods
R (>= 2.3.0), Biobase (>= 1.10.0), RColorBrewer (>= 0.1-3), xtable, lattice, methods
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Dm.eg.db
R (>= 2.6.0), methods, Biobase (>= 2.5.5), lattice, GGtools, GGBase, snpMatrix
R (>= 2.0), affy (>= 1.23.4), genefilter, RColorBrewer,
RMySQL (>= 0.6-0), DBI, methods
R(>= 2.5.0), methods, mnormt, mclust, ellipse, Biobase, flowCore(>= 1.11.23)
R (>= 2.4.0), outliers, lattice, flowViz, methods, mvoutlier, bioDist, parody,RColorBrewer,latticeExtra
R (>= 2.6.0), affy (>= 1.23.2), graphics, methods, stats, utils
R (>= 2.6.0), tools, utils, IRanges, Biobase (>= 2.5.5), Biostrings
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.5)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.20), org.Hs.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.19), org.Hs.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.19), org.Mm.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.19), org.Rn.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.5.23), org.Hs.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.5.23), org.Mm.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.5.23), org.Rn.eg.db
R (>= 2.4.0), annotate, affy (>= 1.23.4), Biobase (>= 2.5.5), mgcv (>= 1.4-0), methods, preprocessCore, RSQLite, MASS
R (>= 2.7.0), methods, AnnotationDbi (>= 1.8.0), org.Mm.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.20), org.Mm.eg.db
R (>= 2.4.0), methods, graph, Biobase (>= 2.5.5), AnnotationDbi, SparseM, GO.db, annotate
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.17)
R (>= 2.8.0), flowCore, lattice, latticeExtra, robustbase
R (>= 2.6.0), Biobase (>= 2.5.5), affy (>= 1.23.4), graphics, grDevices, methods, stats, utils
methods, Biobase (>= 2.5.5), AnnotationDbi
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.20), org.Rn.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.8.0), org.Rn.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Xl.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Sc.sgd.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.7.16), org.Dr.eg.db
biomaRt, multtest, IRanges, Biostrings, BSgenome,BSgenome.Ecoli.NCBI.20080805, GO.db,org.Hs.eg.db,limma
R (>= 2.8.0), qvalue, ShortRead, samr, methods
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.8), org.Hs.eg.db
R (>= 2.6.0), methods, Biobase (>= 2.5.5), ff, GGBase,
snpMatrix, illuminaHumanv1.db, AnnotationDbi
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase (>= 3.7.5),
snpMatrix(>= 1.7.3), annotate, ff, IRanges, rtracklayer, multtest, org.Hs.eg.db
R (>= 2.10.0), igraph, RCurl, annotate, Biobase (>= 1.12.0), methods, XML, RSQLite, MASS, rgl
IRanges (>= 1.6.6), GenomicRanges (>= 0.0.9)
methods, RSQLite, DBI (>= 0.2-5), IRanges, GenomeGraphs
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Hs.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Mm.eg.db
R(>= 2.11.0), IRanges, GenomicRanges, BSgenome, chipseq
methods, IRanges (>= 1.5.56), GenomicRanges (>= 0.1.0),
Biostrings (>= 2.15.0)
R (>= 2.10.0), Biobase (>= 2.7.4), methods, oligoClasses (>= 1.9.52), graphics
methods, IRanges (>= 1.5.65), GenomicRanges, Biostrings (>= 2.13.52),
lattice, Rsamtools
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.8), org.Rn.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.At.tair.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Bt.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Cf.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Ce.eg.db
RColorBrewer, Biobase, methods, genefilter, splots, vsn, hwriter, locfit, grid
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Gg.eg.db
methods, IRanges (>= 1.6.10), GenomicRanges (>= 1.0.7), BSgenome, ShortRead
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Dm.eg.db
methods, isa2, Biobase, AnnotationDbi, Category, genefilter, DBI
R(>= 2.5.0), methods, mnormt, ellipse, Biobase, flowCore(>= 1.11.23)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.10), org.Hs.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.8), org.Mm.eg.db
Biobase, Rsamtools (>= 0.1.50), BSgenome
R (>= 2.11.0), Biostrings(>= 2.4.8), plotrix,gsubfn, grid,sqldf
R (>= 2.7.0), methods, AnnotationDbi (>= 1.10.0)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.10), org.Mm.eg.db
Biobase, limma, affylmGUI, tkWidgets, GOstats, AnnotationDbi, preprocessCore, IRanges, edgeR, Genominator, HuExExonProbesetLocationHg19, MoExExonProbesetLocation, RaExExonProbesetLocation
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.10)
R(>= 2.11.0) , methods, AnnotationDbi (>= 1.3.12), PAnnBuilder (>= 1.3.0)
Biobase, MASS, pls, methods, Rcpp (>= 0.6.4)
R (>= 2.8.0), flowCore, flowViz, lattice, latticeExtra
R (>= 2.6.0), Biobase (>= 2.5.5), affy (>= 1.23.4), graphics, grDevices, methods, stats, utils, mclust
R(>= 2.9.0), IRanges, Biobase, affxparser
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Rn.eg.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.10), org.Rn.eg.db
R (>= 2.3.0), methods, baySeq (>= 1.1.23), ShortRead
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.6)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Xl.eg.db
R (>= 2.8.0), RMySQL (>= 0.6-0), IRanges, methods, digest
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Sc.sgd.db
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7), org.Dr.eg.db
R (>= 2.7.0), methods, Biobase (>= 2.9.0),
snpMatrix(>= 1.7.6), RSQLite
R (>= 2.6.0), methods, Biobase (>= 2.5.5), ff, GGBase,
illuminaHumanv1.db, AnnotationDbi
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase (>= 3.7.5),
snpMatrix(>= 1.13.3), annotate, IRanges, rtracklayer, org.Hs.eg.db,
GenomicRanges, ff
R (>= 2.10.0), igraph, RCurl, annotate, Biobase (>= 1.12.0), methods, XML, RSQLite, MASS, rgl, Heatplus, RColorBrewer
IRanges (>= 1.7.7), GenomicRanges (>= 0.0.9)
igraph, GSEABase, BioNet, cellHTS2, RankProd, methods
R(>= 2.11.0), IRanges, GenomicRanges, BSgenome
R (>= 2.10.0), Biobase, Biostrings, BSgenome.Scerevisiae.UCSC.sacCer2
methods, IRanges (>= 1.7.23), GenomicRanges (>= 0.1.0),
Biostrings (>= 2.15.0)
methods, IRanges (>= 1.7.23), GenomicRanges, Biostrings (>= 2.13.52),
lattice, Rsamtools
R (>= 2.7), methods, Biobase, affy, makecdfenv, Biostrings, hypergraph
R (>= 2.10.0), AnnotationDbi, KEGG.db, GOstats
R (>= 2.11.0), Biobase, SQN, fields, RColorBrewer, genefilter
methods, IRanges (>= 1.7.13), GenomicRanges (>= 1.1.29), BSgenome, ShortRead
R (>= 2.10.0), kernlab (>= 0.9), biomaRt (>= 1.12.1), KEGGSOAP (>= 1.12.0), RBGL, AnnotationDbi,org.Dm.eg.db, keggorthology (>= 2.0)
R (>= 2.10.0), methods, IRanges (>= 1.3.53), Rsamtools,
ShortRead (>= 1.3.21), intervals (>= 0.13.1),
genomeIntervals (>= 1.1.1), grid
R (>= 2.11.0), methods, graphics, fdrtool
Biobase, limma, affylmGUI, tkWidgets, GOstats, AnnotationDbi, preprocessCore, IRanges, edgeR, baySeq, girafe
R (>= 2.7.0), methods, AnnotationDbi (>= 1.12.0)
R (>= 2.9.0),methods,Biobase,limma,affy (>= 1.22),preprocessCore,affycoretools
GenomicRanges (>= 1.3.38), ShortRead, rtracklayer
R (>= 2.12.0), methods, Biobase (>= 2.5.5), GGBase,
snpStats, illuminaHumanv1.db, AnnotationDbi
R (>= 2.7.0), methods, Biobase (>= 1.11.26), GGBase (>= 3.7.5),
snpStats(>= 1.1.10), annotate, IRanges, rtracklayer, org.Hs.eg.db,
GenomicRanges (>= 1.3.38), ff
IRanges (>= 1.7.7), GenomicRanges (>= 1.3.23)
GO.db, KEGG.db, AnnotationDbi, annaffy, methods, Biobase (>= 2.5.5)
R (>= 2.12.0), Biobase, Biostrings, BSgenome.Scerevisiae.UCSC.sacCer2
methods, IRanges (>= 1.9.4), GenomicRanges (>= 0.1.0),
Biostrings (>= 2.15.0)
methods, IRanges (>= 1.10.2), GenomicRanges, Biostrings (>= 2.19.0),
lattice, Rsamtools
R (>= 2.10.0), IRanges, oligoClasses (>= 1.9.53), methods
R (>= 2.13.0), methods, Biobase (>= 2.3.3), affycompData
R (>= 2.10.0), AnnotationDbi, KEGG.db, limma, cluster, GOstats, graphics, methods, stats
methods, IRanges (>= 1.7.13), GenomicRanges (>= 1.3.4), BSgenome, ShortRead
R (>= 2.6.0), methods, Biobase (>= 2.5.5), lattice, GGtools, GGBase
R (>= 2.10.0), methods, IRanges (>= 1.3.53), Rsamtools,
ShortRead (>= 1.3.21), intervals (>= 0.13.1),
genomeIntervals (>= 1.7.3), grid
R (>= 2.10.0), tools, utils, IRanges, Biobase (>= 2.5.5), Biostrings
R (>= 2.12.1), methods, graphics, fdrtool
R (>= 2.7.0), methods, AnnotationDbi (>= 1.14.1)
R (>= 2.9.0), Biobase, methods, annotate, Heatplus
Rsamtools (>= 1.3.28), methods, tools, utils
survival, ipred, prodlim, survivalROC, SuppDists, grid, rmeta, bootstrap
R (>= 2.9.0),methods,Biobase,limma,affy (>=
1.22),preprocessCore,affycoretools
biomaRt, multtest, IRanges, Biostrings,
BSgenome,BSgenome.Ecoli.NCBI.20080805,
GO.db,org.Hs.eg.db,limma,gplots
Biobase, ShortRead (>= 1.11.42), Rsamtools (>= 1.5.75),
aroma.light
R (>= 2.13.0), methods, Biobase (>= 2.13.0), snpStats(>=
1.1.10), RSQLite, genefilter
R (>= 2.13.0), methods, Biobase (>= 1.11.26), GGBase (>=
3.13.5), snpStats(>= 1.1.10), annotate, IRanges, rtracklayer,
org.Hs.eg.db, GenomicRanges (>= 1.3.38), ff
R (>= 2.10.0), igraph, RCurl, annotate, Biobase (>= 1.12.0),
methods, XML, RSQLite, MASS, rgl, Heatplus, RColorBrewer
R (>= 2.10), Biobase (>= 2.11.0), methods, ggplot2, mzR
Category, ScISI (>= 1.3.0), SLGI, ppiStats, ppiData, annotate
(>= 1.17.4)
GO.db, KEGG.db, AnnotationDbi, annaffy, methods, Biobase (>=
2.5.5)
R (>= 2.12.0), Biobase, Biostrings,
BSgenome.Scerevisiae.UCSC.sacCer2
R (>= 2.14.0), BSgenome.Celegans.UCSC.ce2, multtest,
Biostrings, BSgenome,ChIPpeakAnno
methods, IRanges (>= 1.11.34), GenomicRanges (>= 1.5.49),
Biostrings (>= 2.21.12)
R (>= 2.10.0), Biobase (>= 2.7.4), methods, oligoClasses (>=
1.9.52), graphics
methods, IRanges (>= 1.11.2), GenomicRanges, Biostrings (>=
2.19.0), lattice, Rsamtools (>= 1.5.75), latticeExtra
R (>= 2.13.0), IRanges, oligoClasses (>= 1.15.40), methods,
stats
methods, R (>= 2.8.0), GenomicRanges, Biostrings,
AnnotationDbi, Rsamtools
R (>= 2.7), methods, Biobase, affy, makecdfenv, Biostrings,
hypergraph
RColorBrewer, Biobase, methods, genefilter, splots, vsn,
hwriter, locfit, grid
R (>= 2.10), methods, IRanges (>= 1.11.16), GenomicRanges (>=
1.3.4), BSgenome, ShortRead
R (>= 2.13), Biobase, IRanges, GenomicRanges
mclust, nor1mix, stats, preprocessCore, splines, quantreg
R (>= 2.6.0), methods, Biobase (>= 2.5.5), lattice, GGtools,
GGBase
methods, graphics, IRanges, GenomicRanges, Rsamtools (>=
1.4.3)
R(>= 2.5.0), methods, mnormt, ellipse, Biobase, flowCore(>=
1.11.23)
R (>= 2.10.0), outliers, lattice, flowViz, methods, mvoutlier,
bioDist, parody,RColorBrewer,latticeExtra
methods, RBGL, graph, XML, flowCore, flowViz, Rgraphviz,
Biobase,IDPmisc
R (>= 2.12.2), Biobase, IRanges, methods, MASS, BSgenome,
GenomicRanges
R (>= 2.9.0), Biobase, stats, methods, ggplot2, plyr
methods, Biobase, lattice, reshape, mclust
R (>= 2.13.0), methods, igraph, graph, minet, qvalue,
multicore, doMC
Biobase, affylmGUI, tkWidgets, IRanges, Rsamtools, Biostrings
R (>= 2.4.0), methods, graph, Biobase (>= 2.5.5),
AnnotationDbi, SparseM, GO.db, annotate
R (>= 2.12.0), Biobase, methods, annotate, Heatplus
R (>= 2.6.0), Biobase (>= 2.5.5), affy (>= 1.23.4), graphics,
grDevices, methods, stats, utils, mclust
R (>= 2.14), randomForest, MAclinical, tspair, pamr, snowfall,
time, glmpath, penalized, e1071
survival, grid, rmeta, KernSmooth, bootstrap, survivalROC, R
(>= 2.10)
R (>= 2.10), Biobase (>= 2.5.5), methods, BiocGenerics
R (>= 3.1.0), grid, GenomicRanges, GenomicAlignments,
R (>= 2.7.0), methods, utils, stats4, BiocGenerics (>=
0.11.2), Biobase (>= 1.17.0), GenomeInfoDb(>= 0.99.17)
R (>= 2.15.2), methods, S4Vectors, IRanges (>= 1.17.24),
GenomicRanges, Formula
R (>= 3.0.0), methods, VariantAnnotation, parallel, rjags,
ggplot2, gridExtra
R (>= 3.0.1), BiocGenerics, Biostrings, BSgenome, seqinr
R (>= 2.15.0), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges
methods, stats4, Matrix, BiocGenerics, AnnotationDbi, Biobase,
GO.db,
R (>= 3.0.0), ggplot2, DiffBind, GenomicRanges (>= 1.17.19)
R (>= 2.10.0), methods, BiocGenerics, S4Vectors, ShortRead
R (>= 3.0.3), methods, Biobase, BiocParallel
R (>= 2.14), igraph, shiny, arules, methods
S4Vectors, IRanges, GenomicRanges, Rcpp (>= 0.10.1),
RcppArmadillo (>= 0.3.4.4)
Biobase, GenomicRanges, IRanges, DESeq2 (>= 1.5.63),
BiocParallel
R (>= 2.10.0), BiocGenerics, S4Vectors, IRanges
R (>= 2.10), GenomicFeatures (>= 1.7.22),
TxDb.Hsapiens.UCSC.hg18.knownGene, org.Hs.eg.db
R (>= 2.10), GenomicFeatures (>= 1.7.22),
TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db
R (>= 2.10), Matrix, igraph, marray, corrplot, impute, limma,
org.Hs.eg.db, graph, BiocGenerics
R (>= 3.0), GenomicRanges, ggplot2, DESeq2, splines, methods
R (>= 2.14), GGBase (>= 3.19.7), data.table, parallel
R (>= 2.15.1), methods, utils, GenomicRanges, Biostrings,
BSgenome, data.table
shiny, sp, gplots, ggplot2, reshape2, RColorBrewer, rhdf5,
rgl, shinyRGL
R (>= 3.1), methods, stats4, BiocGenerics, S4Vectors (>=
0.2.0), IRanges (>= 1.99.26)
BiocGenerics (>= 0.1.0), S4Vectors (>= 0.1.5), IRanges (>=
1.99.1), GenomeInfoDb (>= 1.1.3), GenomicRanges (>= 1.17.12),
AnnotationDbi (>= 1.27.9)
R (>= 2.10), GenomicRanges (>= 1.17.46), GenomeInfoDb, methods
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.11.3),
S4Vectors (>= 0.2.5)
Biobase, IRanges, GenomicRanges, RColorBrewer,
rtracklayer,graphics,GenomeInfoDb
R (>= 2.9), Biobase, methods, annotate, cluster
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), mzR, BiocParallel
R (>= 2.15.0), methods, BiocGenerics, S4Vectors, IRanges,
Biostrings
R (>= 2.9.0), methods, S4Vectors, IRanges, ShortRead (>=
1.23.15), Biobase, vegan
R (>= 2.14.0), methods, AnnotationDbi (>= 1.16.10),
GenomicFeatures (>= 1.17.13)
R (>= 2.15.0), methods, IRanges, biomaRt, BiocGenerics, httr
R (>= 2.10), methods, BiocGenerics, Rcpp, Gviz
R (>= 2.10), methods, WGCNA, MSnbase, flashClust
R (>= 3.0.2), GenomicRanges, VariantAnnotation
R (>= 2.15.0), methods, IRanges, PSICQUIC, AnnotationHub,
RCurl, shiny
R (>= 3.1.0), Biobase, ggplot2, limma, methods
R (>= 3.1.0), methods, utils, stats, stats4, BiocGenerics (>=
0.11.3)
R (>= 2.10), S4Vectors, IRanges, GenomicRanges, BSgenome (>=
1.33.9)
R (>= 2.14.0), png, sqldf, plyr, igraph, RCurl, plotrix,
methods, RColorBrewer, gplots, hash
R (>= 3.1), AnnotationDbi, GO.db, annotate
BiocGenerics (>= 0.11.3), BiocParallel, Biostrings (>=
2.33.14), Rsamtools (>= 1.17.28), GenomicAlignments (>= 1.1.28)
R (>= 3.1.0), MLInterfaces, Biobase, e1071, BiocParallel
R (>= 3.0.2), VariantAnnotation, GenomicRanges
BiocGenerics, S4Vectors (>= 0.1.0), IRanges (>= 1.99.21),
GenomicRanges (>= 1.17.22), GenomicFeatures (>= 1.17.13),
GenomicAlignments (>= 1.1.22), Rgraphviz (>= 2.3.7)
R (>= 2.8.0), methods, BiocGenerics (>= 0.7.7), GenomeInfoDb
(>= 1.1.3), GenomicRanges (>= 1.17.40), Rsamtools (>= 1.17.26)
S4Vectors (>= 0.0.2), IRanges (>= 1.99.2), GenomicRanges (>=
1.17.7), VariantAnnotation (>= 1.11.16), methods
R (>= 2.3.0), methods, GenomicRanges, abind
R (>= 2.10), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges,
foreach, iterators, methods, parallel, locfit
R (>= 2.10), methods, BiocGenerics (>= 0.1.0), S4Vectors (>=
0.0.1), IRanges (>= 1.99.1), GenomicRanges (>= 1.17.7),
BSgenome, ShortRead
R (>= 2.13.0), IRanges, methods, Biobase, MASS, graphics,
stats, changepoint
R (>= 3.0), Biobase, methods, ff, oligoClasses, snow
R (>= 3.1.1), methods, topGO, GenomicRanges
R (>= 2.7.0), BiocGenerics (>= 0.3.2), RSQLite (>= 1.0.0),
ggplot2, reshape2, fastcluster, rtracklayer, Gviz
Rsamtools, GenomicFeatures (>= 1.14.5), rtracklayer
R (>= 3.0), methods, cgdsr (>= 1.1.30), coin (>= 1.0),
ggplot2, gridExtra, facopy.annot
methods, LiquidAssociation, parallel, stats, Hmisc
R (>= 2.10.0), methods, BiocGenerics, S4Vectors, IRanges (>=
1.3.53), Rsamtools, ShortRead (>= 1.3.21), intervals (>=
0.13.1), genomeIntervals (>= 1.7.3), grid
R (>= 2.15.0), methods, GenomeInfoDb (>= 1.1.3), GenomicRanges
(>= 1.17.12)
R (>= 3.0.2), MASS, S4Vectors, IRanges, GenomicRanges,
GenomicAlignments, rtracklayer, parallel
Biostrings, GenomicAlignments, xlsx, BiocParallel,
hiAnnotator, R (>= 3.0)
R (>= 2.12.2), methods, BiocGenerics (>= 0.1.0), Biobase,
IRanges, MASS, BSgenome, GenomeInfoDb (>= 1.1.3),
GenomicRanges (>= 1.17.11)
cluster, gplots, diptest, Biobase, R (>= 3.0.2)
R (>= 3.0.1), fdrtool, Category, BiocGenerics, methods,
cummeRbund, org.Hs.eg.db, MeSH.db, MeSH.AOR.db, MeSH.PCR.db,
MeSHDbi, org.MeSH.Hsa.db, org.MeSH.Aca.db, org.MeSH.Atu.K84.db,
org.MeSH.Bsu.168.db, org.MeSH.Syn.db, S4Vectors
R(>= 3.0), Biobase, limma, methods, interactiveDisplay(>=
1.3.24), RColorBrewer
R (>= 2.10), grid, BiocGenerics, S4Vectors, IRanges,
GenomeInfoDb, GenomicRanges, Biobase (>= 2.5.5), org.Hs.eg.db
R (>= 3.1.1), methods, grDevices, graphics, stats, utils,
GenomicRanges, Rsamtools
R (>= 2.7.0), HSMMSingleCell, Biobase, ggplot2(>= 0.9.3.1),
splines, VGAM (>= 0.9-4), igraph(>= 0.7.0), plyr
R (>= 2.14.0), flowCore, flowViz, RcppArmadillo, BH
R (>= 2.15), MSnbase (>= 1.13.3), MLInterfaces (>= 1.37.1),
methods, Rcpp (>= 0.10.3), BiocParallel
R (>= 3.1.1), rJava (>= 0.9-4), XML, RCurl, rjson, plyr
R (>= 3.1.0), methods, BiocGenerics, S4Vectors
R (>= 3.0.2), methods, GenomicRanges, abind
R (>= 2.10), methods, GenomicRanges (>= 1.17.39)
R (>= 2.14.0), STRINGdb, methods, BiocGenerics, Biostrings,
IRanges, plyr, tcltk
R (>= 2.3.0), methods, baySeq (>= 1.99.0), ShortRead,
GenomicRanges, IRanges, S4Vectors
methods, BiocGenerics (>= 0.3.2), shiny (>= 0.9.1), minfi (>=
1.6.0), IlluminaHumanMethylation450kmanifest, matrixStats, R
(>= 3.0.0)
R (>= 3.0.2), methods, DBI, RSQLite, seqinr, protViz (>=
0.2.5)
R (>= 3.0.0), graph, GenomicRanges, gwascat, doParallel,
foreach
R (>= 2.10), limma, methods, matrixStats, methylumi, lumi,
ROC, IlluminaHumanMethylation450kanno.ilmn12.hg19
R (>= 3.1.0), grid, GenomicRanges, GenomicAlignments,
VariantAnnotation, Gviz
R (>= 2.7.0), methods, utils, stats4, BiocGenerics (>=
0.13.8), Biobase (>= 1.17.0), GenomeInfoDb(>= 0.99.17)
R (>= 2.14.0), rsbml, hyperdraw, LIM,stringr
R (>= 3.1.2), Rsamtools, GenomeInfoDb,
BSgenome.Hsapiens.UCSC.hg19
BiocGenerics, Biobase, graphics, methods, stats, ProtGenerics
methods, stats4, Matrix, BiocGenerics (>= 0.13.8),
AnnotationDbi, Biobase, GO.db
R (>= 2.10), grid, VennDiagram, biomaRt, IRanges, Biostrings,
GenomicRanges
R (>= 2.10.0), methods, BiocGenerics, S4Vectors
R (>= 2.10), methods,Rsamtools (>= 1.19.17),rtracklayer
BiocParallel, Biobase, IRanges (>= 2.1.10), GenomicRanges (>=
1.19.6), DESeq2 (>= 1.5.63)
R (>= 3.2), GenomicRanges, IRanges, S4Vectors
R (>= 3.1.0), GenomicRanges, limma, GenomicAlignments, locfit
R(>= 3.0.0), Biobase, GSEABase, pathview
R (>= 2.11), flowCore, igraph, ConsensusClusterPlus,
BiocGenerics, tsne
R (>= 3.0), GenomicRanges, ggplot2, DESeq2, splines, methods,
LSD
shiny, sp, gplots, ggplot2, reshape2, RColorBrewer, rhdf5,
R(>= 2.10.0)
BiocGenerics (>= 0.1.0), S4Vectors (>= 0.1.5), IRanges (>=
2.1.36), GenomeInfoDb (>= 1.4.3), GenomicRanges (>= 1.17.12),
AnnotationDbi (>= 1.27.9)
R (>= 3.2.0), GenomicRanges (>= 1.19.47), GenomeInfoDb,
BiocGenerics, methods
R (>= 3.1.0), GenomicAlignments (>= 1.0.1), VariantAnnotation
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.13.6),
S4Vectors (>= 0.6.1)
R (>= 3.1), GenomicRanges, GenomicFeatures, BiocParallel,
S4Vectors
R (>= 2.9), methods, BiocGenerics (>= 0.13.11), Biobase,
annotate, cluster
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), mzR, BiocParallel, ProtGenerics
R (>= 3.1.2), stringr, seqinr, gplots, Biostrings
R (>= 2.10), methods, BiocGenerics (>= 0.13.8), Biobase, plyr,
ggplot2, scales, foreach, xtable, biomaRt, gtools, GOstats,
cluster, marray, mclust, RColorBrewer, colorspace, igraph,
Rgraphviz, graph, annotate, Hmisc, fastICA, JADE
R (>= 3.0.0), KEGGdzPathwaysGEO, methods,Biobase
R (>= 2.15.0), methods, IRanges, biomaRt, BiocGenerics, httr,
plyr
R (>= 2.12.0), Biobase, Biostrings, GenomicRanges, IRanges
R (>= 3.0.0), BiocGenerics, GenomicRanges, MASS, RColorBrewer,
cluster, ff, fields, ggplot2 (>= 0.9.2), gplots, gridExtra,
limma, matrixStats, methods, illuminaio, methylumi, plyr
R (>= 2.10), IRanges, GenomeInfoDb, GenomicRanges, BSgenome
(>= 1.25.6)
R (>= 3.1.0), MLInterfaces, Biobase, e1071, BiocParallel,
survival
R (>= 3.1.0), VariantAnnotation, GenomicRanges
GenomicFeatures (>= 1.17.13), GenomicAlignments (>= 1.1.22),
Rgraphviz (>= 2.3.7)
R (>= 2.12.0), data.table, impute, aroma.affymetrix
R (>= 3.2.0), Biobase, ggplot2, openxlsx, plyr, gridExtra,
grid
R (>= 2.10), methods, Rgraphviz, lattice, graph
graphite, gRbase, graph, locfit, Rgraphviz
methods, utils, RSQLite, RCurl, BiocGenerics (>= 0.13.8)
R (>= 2.8.0), methods, BiocGenerics (>= 0.7.7), GenomeInfoDb
(>= 1.1.3), GenomicRanges (>= 1.19.47), Rsamtools (>= 1.19.52)
R (>= 3.0.0), methods, BiocGenerics (>= 0.13.8),
VariantAnnotation (>= 1.13.29)
R (>= 2.10), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges,
BSgenome (>= 1.35.5)
R (>= 2.3.0), methods, GenomicRanges, abind, perm
R (>= 2.15), methods, BiocGenerics, S4Vectors, IRanges (>=
2.1.10), GenomicRanges (>= 1.19.6), parallel, matrixStats,
GenomeInfoDb
Biobase, GenomicRanges (>= 1.13.3), Rsamtools (>= 1.13.1),
GenomicAlignments, methods, AnnotationDbi,
BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene,
Homo.sapiens
R (>= 2.15), BiocGenerics (>= 0.1.0), methods, BSgenome,
BSgenome.Drerio.UCSC.danRer7, GenomicRanges, seqinr, e1071
brglm, doParallel, foreach, GenomicRanges, methods,
splitstackshape
R (>= 3.2), cluster, ggplot2, gplots, amap
R (>= 3.0), minfi, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19
R (>= 2.10), GenomicFeatures, GSEABase (>= 1.24.0)
R (>= 3.0.0), ggplot2, impute, XML, Biobase, BiocStyle
R (>= 2.13.0), methods, graphics, parallel, Rhtslib, IRanges,
GenomicRanges, Biostrings, VGAM, VariantAnnotation (>=
1.13.44),
R (>= 3.0.1), methods, Biobase, GenomicRanges (>= 1.13.47),
rtracklayer
R (>= 3.0), methods, cgdsr (>= 1.1.30), coin (>= 1.0),
ggplot2, gridExtra, facopy.annot, grid
R (>= 3.2), methods, flowCore, flowViz, flowStats
Biobase, gCMAP (>= 1.3.0), methods, R (>= 2.15.0), Rook
R (>= 2.10.0), methods, BiocGenerics (>= 0.13.8), S4Vectors,
Rsamtools, intervals (>= 0.13.1), ShortRead (>= 1.3.21),
genomeIntervals (>= 1.7.3), grid
R(>= 2.13.0), methods, stats, graphics, grid, lattice,
flowCore
R (>= 3.0.1), fdrtool, Category, BiocGenerics, methods,
cummeRbund, org.Hs.eg.db, MeSH.db, MeSH.AOR.db, MeSH.PCR.db,
MeSHDbi, MeSH.Hsa.eg.db, MeSH.Aca.eg.db, MeSH.Bsu.168.eg.db,
MeSH.Syn.eg.db, S4Vectors
R6 (>= 2.0), GenomicRanges, BiocParallel
R(>= 3.0), Biobase, limma, methods, RColorBrewer
R (>= 3.2.0), methods, grDevices, graphics, stats, utils,
GenomicRanges, Rsamtools
Biobase, methods, R (>= 2.13), scales, reshape2, ggplot2,
matrixStats, FDb.InfiniumMethylation.hg19 (>= 2.2.0), minfi
R (>= 2.15.1), methods, grImport, grid, MotIV, ade4,
Biostrings
R (>= 2.14.0), flowCore (>= 1.33.13), flowViz, RcppArmadillo,
BH
R (>= 2.15.1), Rgraphviz, methods, minet, mclust, reshape
graph, Rgraphviz, RColorBrewer, cMAP, AnnotationDbi, methods,
stats4
R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA,
ggplot2
R (>= 3.2.0), methods, Rsamtools, GenomicRanges
R (>= 2.14.0), GenomicAlignments, affy, RPA
R (>= 3.2.0), oligo (>= 1.32.0),graphics,grDevices, methods,
stats, utils, mclust, oligoClasses
reshape, ggplot2, Biostrings, biovizBase, brew, xtable,
Rsamtools (>= 1.19.38), testthat
GenomicRanges, Rsamtools, rtracklayer, VGAM, qvalue
R (>= 3.1.1), Biobase, rcdk, fingerprint
memoise, GenomicRanges, BSgenome, rtracklayer, parallel
R (>= 2.10), methods, GenomicRanges (>= 1.19.3)
R (>= 3.1.1), methylumi, wateRmelon, mixsmsn,
IlluminaHumanMethylation450kmanifest
R (>= 3.0.2), methods, DBI, RSQLite, seqinr, protViz (>=
0.2.5),
R (>= 2.15.0), methods, limma, sigPathway, samr, anota, DESeq,
edgeR, RankProd, topGO, org.Hs.eg.db, GOSemSim, Heatplus,
gplots, plotrix, Biobase
R (>= 2.14.0), methods, mzR (>= 1.1.6), BiocGenerics,
ProtGenerics, Biobase
R (>= 3.6), impute, doParallel, grDevices, dplyr, methods,
ComplexHeatmap
R (>= 3.6.0), SummarizedExperiment, ROCR
methods, grDevices, stats, utils, parallel, edgeR
R (>= 3.2.0), grid, GenomicRanges (>= 1.31.8),
SummarizedExperiment (>= 0.2.0), GenomicAlignments (>= 1.15.6)
R (>= 3.5), GenomicRanges, ggplot2, cowplot, AneuFinderData
R (>= 2.7.0), methods, utils, stats4, BiocGenerics (>=
0.29.2), Biobase (>= 1.17.0), IRanges
R (>= 3.2.2), methods, utils, S4Vectors (>= 0.7.21), IRanges
(>= 2.3.23), GenomicRanges, AnnotationHub (>= 2.15.15)
BiocGenerics (>= 0.15.10), BiocFileCache (>= 1.5.1)
R (>= 3.5), vegan, ellipse, ggplot2, ape, SummarizedExperiment
ROntoTools, GSA, PADOG, limma, graph, stats, utils, parallel,
Biobase
R (>= 3.3.1), GenomicRanges, IRanges, Rsamtools,
R (>= 3.4), Biostrings, GenomicAlignments, caTools,
GenomicRanges, grDevices, graphics, stats, utils
R (>= 2.15.2), methods, S4Vectors, IRanges (>= 1.17.24),
GenomicRanges, SummarizedExperiment (>= 0.2.0), Formula
R (>= 3.5), shiny, igraph, shinyBS, pathview
R (>= 3.6.0), methods, utils, graphics, stats, parallel
R (>= 3.5.0), reticulate, methods, SummarizedExperiment, knitr
R (>= 3.5), IRanges, GenomicRanges, plyr, dplyr, magrittr
R (>= 3.5), GenomicRanges (>= 1.30.1), rtracklayer (>=
1.38.2), SummarizedExperiment (>= 1.8.1)
methods, MultiAssayExperiment, R (>= 3.5.0)
R (>= 3.3.0), stats, methods, CCP, PROMISE, Biobase, GSEABase,
utils
R (>= 3.6), ggplot2, SingleCellExperiment
R (>= 3.2.3), Rsamtools, GenomeInfoDb,
BSgenome.Hsapiens.UCSC.hg19, IRanges, Biostrings, S4Vectors
BiocGenerics, BiocParallel, EBImage, graphics, methods,
S4Vectors (>= 0.23.18), stats, ProtGenerics
methods, stats4, BiocGenerics, AnnotationDbi, Biobase, Matrix
R (>= 3.6), SingleCellExperiment, magrittr, methods, stats,
tibble, utils
R (>= 2.15.0), RBGL, graph, methods, hash, RCurl, Rgraphviz,
XML, ggplot2
R (>= 3.3), minfi, ChAMPdata (>= 2.6.0), FEM (>= 3.1),DMRcate,
Illumina450ProbeVariants.db,IlluminaHumanMethylationEPICmanifest,
DT
R (>= 3.5.0),GenomicRanges, Biostrings, BSgenome, RcppRoll,
parallel
R (>= 3.2), methods, grid, IRanges (>= 2.13.12), Biostrings
(>= 2.47.6), GenomicRanges (>= 1.31.8), S4Vectors (>= 0.17.25),
VennDiagram
R (>= 2.10.0), methods, BiocGenerics, S4Vectors (>= 0.9.25)
R (>= 3.5.0), methods, S4Vectors (>= 0.18.0),
MultiAssayExperiment (>= 1.6.0), BiocParallel
R (>= 3.4), stats, utils, graphics, infotheo, lattice,
latticeExtra, httr, jsonlite
R (>= 3.1.2), methods, grid, graphics, stats, grDevices
R (>= 2.10), methods, Rsamtools (>= 1.19.17), rtracklayer
R (>= 3.6.1), foreach, parallel, doParallel, igraph
R (>= 3.3.0), Biostrings (>= 2.35.12), RSQLite (>= 1.1),
stats, parallel
S4Vectors (>= 0.23.18), IRanges, GenomicRanges,
SummarizedExperiment (>= 1.1.6)
R(>= 3.6.0), R.utils, DESeq2, BiocParallel
BiocParallel, Biobase, SummarizedExperiment, IRanges (>=
2.5.17), GenomicRanges (>= 1.23.7), DESeq2 (>= 1.9.11),
AnnotationDbi, RColorBrewer, S4Vectors (>= 0.23.18)
R (>= 3.6.0), SummarizedExperiment, methods, S4Vectors,
BiocParallel, GenomicRanges, IRanges
R (>= 3.5.0), SummarizedExperiment, methods, S4Vectors,
BiocParallel, GenomicRanges, IRanges, fdrtool
R (>= 3.5), GenomicRanges, IRanges, S4Vectors (>= 0.23.10)
R (>= 3.6.0), minfi, SummarizedExperiment
R (>= 3.3), Biobase, bsseq, splines, methods
R (>= 3.4), SummarizedExperiment, ggplot2
R (>= 3.6.0), parallel, Rcpp (>= 1.0.0), SummarizedExperiment,
knitr, KernSmooth, matrixcalc
R (>= 3.4), methods, stats4, matrixStats, BiocGenerics (>=
0.31.5), S4Vectors (>= 0.24.4), IRanges (>= 2.17.3),
BiocParallel
R (>= 3.5), GenomicRanges, SummarizedExperiment
blockmodeling, gplots, testthat, R (>= 3.0.0)
R (>= 3.1.2), methods, grid, ComplexHeatmap (>= 1.99.0),
GenomicRanges
R (>= 3.5), Biobase, GenomicRanges, GenomeInfoDbData,
AnnotationHub (>= 2.13.8),
R (>= 3.4), SGSeq, Matrix, SummarizedExperiment
Rsubread, GenomicRanges, rtracklayer, matrixStats, IRanges
utils, BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData
(>= 1.13.11)
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.17.9),
BiocFileCache (>= 1.5.1)
R (>= 3.2.0), methods, Biobase, SummarizedExperiment, limma,
S4Vectors, xml2
R (>= 3.5), minfi (>= 1.21.2), SummarizedExperiment,
genefilter, quadprog, nlme, S4Vectors, graphics, stats, utils,
IlluminaHumanMethylationEPICanno.ilm10b4.hg19, ExperimentHub
R (>= 3.6), minfi (>= 1.21.2), SummarizedExperiment,
IlluminaHumanMethylation450kanno.ilmn12.hg19(>= 0.2.1),
IlluminaHumanMethylationEPICanno.ilm10b4.hg19, ExperimentHub(>=
1.9.1), FlowSorted.Blood.EPIC, utils
R (>= 3.0), GenomicRanges, ggplot2, DESeq2 (>= 1.9.11),
splines, methods, LSD
R (>= 3.5), gdsfmt, methods, BiocGenerics, DelayedArray (>=
0.5.32)
R (>= 2.14), GGBase (>= 3.19.7), data.table, parallel,
Homo.sapiens
R (>= 3.5), Matrix, MASS, locfdr, stats, utils
R(>= 3.3.0),stats,utils,graphics, grDevices, diagram, plotrix,
base,GenomicRanges
R (>= 2.7.0), methods, AnnotationDbi (>= 1.47.1)
R (>= 3.5.0), methods, GenomicRanges, Biostrings, BSgenome,
data.table
R (>= 3.4), grid, stats, graphics, Biobase (>= 2.22.0)
R (>= 3.2), penalized, Iso, survival, methods,
graph,stats,glmnet,mvtnorm
R (>= 2.13.1), Homo.sapiens, org.Hs.eg.db, GenomicFeatures,
AnnotationDbi
R (>= 3.2.0), GenomicRanges, BiocGenerics
R(>= 3.2), QDNAseq, CGHcall, CGHbase, GenomicRanges
R (>= 3.1.0), methods, BiocGenerics (>= 0.11.2), GenomicRanges
(>= 1.31.16), SummarizedExperiment, BiocParallel (>= 1.1.0),
Rsamtools (>= 1.17.29), rtracklayer (>= 1.25.3)
R (>= 3.6), Ckmeans.1d.dp (>= 4.3.0), GenomicRanges, biomaRt,
ggplot2
R (>= 3.5), S4Vectors (>= 0.7.21), GenomicRanges, methods,
BiocGenerics (>= 0.13.8)
R (>= 2.10), methods, RSQLite, DBI (>= 0.2-5), BiocGenerics
(>= 0.1.0), IRanges (>= 2.5.27), GenomeGraphs
GenomicFeatures, rtracklayer,AnnotationDbi, GenomicRanges,
magrittr, ggplot2, methods, stats,utils ,knitr,dplyr
methods, BiocGenerics, S4Vectors (>= 0.17.39), IRanges (>=
2.13.12), GenomicRanges (>= 1.31.10), Biostrings (>= 2.41.3),
BSgenome, GenomicFeatures (>= 1.31.5), VariantAnnotation (>=
1.19.3), Rsamtools, GenomicAlignments (>= 1.15.7), rtracklayer
(>= 1.33.8), GenomeInfoDb, SummarizedExperiment
R (>= 3.6), utils, curl, rhdf5, R6, grid
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi
(>= 1.11.39), GenomicFeatures, GO.db, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg19.knownGene
R (> 3.0.0),GenomicFeatures, ggplot2, IVAS
R (>= 3.5), methods, Biobase, BiocParallel
xcms (>= 1.50.0), rsm, CAMERA, grDevices, graphics, stats,
utils
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.25.3),
S4Vectors (>= 0.23.22)
R (> 3.0.0),GenomicFeatures, ggplot2, Biobase
methods, R (>= 3.6.0), Rcpp (>= 0.12.0), SummarizedExperiment,
StanHeaders (> 2.18.1)
graphics, grDevices, stats, utils, parallel, compiler, R (>=
3.2.3)
R (>= 3.1), methods, Biobase, GenomicRanges, GenomicFeatures,
S4Vectors
R (>= 3.5), methods, S4Vectors, IRanges, GenomicRanges,
MultiAssayExperiment, SummarizedExperiment,stats
R (>= 3.4), GenomicRanges, Rsamtools, SummarizedExperiment,
edgeR, S4Vectors
R (>= 3.2.2), methods, SummarizedExperiment (>= 0.2.0), Rcpp
(>= 0.11.0), RcppArmadillo (>= 0.3.4.4)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.34.3)
R (>= 3.3.0), methods, stats, utils, graphics
R (>= 3.5.0), S4Vectors, SingleCellExperiment,
SummarizedExperiment, methods, rhdf5, rtracklayer
SingleCellExperiment (>= 1.2.0), R(>= 3.5)
RUnit, BiocGenerics, BiocParallel, GenomicRanges,
SummarizedExperiment
R (>= 3.3.0), stats, gplots, gtools,graphics,base,
utils,grDevices
R (>= 3.5), methods, BiocGenerics (>= 0.13.11), Biobase,
annotate, cluster
viridis, S4Vectors, GenomeInfoDb, GenomicAlignments,
VariantAnnotation
Biobase, stats, lattice, impute, AnnotationHub, ExperimentHub,
SummarizedExperiment, R (>= 3.6.0)
Biobase, stats, lattice, impute, AnnotationHub, ExperimentHub,
R (>= 3.6.0)
R (>= 2.10), graphics, BiocGenerics, GenomicRanges
R (>= 3.5.0), methods, BiocGenerics, S4Vectors, IRanges,
Biostrings
R (>= 3.6.0), SummarizedExperiment (>= 1.3.81)
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi
(>= 1.11.39), GenomicFeatures, GO.db, org.Mm.eg.db,
TxDb.Mmusculus.UCSC.mm10.knownGene
R (>= 3.4), BiocGenerics, IRanges, GenomicRanges, S4Vectors,
SummarizedExperiment
R (>= 3.6), SummarizedExperiment, S4Vectors
R (>= 3.6), BiocParallel, GenomicFeatures,
SummarizedExperiment, data.table, methods
R (>= 2.14.0), methods, BiocGenerics (>= 0.15.10),
AnnotationDbi (>= 1.33.15), GenomicFeatures (>= 1.23.31)
ggplot2, ggrepel, reshape2, lattice, grDevices, cowplot
R (>= 3.5.0), IRanges, GenomicRanges, Biostrings (>= 2.26.3),
data.table, rTANDEM
biomaRt, fgsea, kernlab, ggplot2, igraph, STRINGdb,
yeastExpData
R (>= 2.10.0), methods, PREDA, Biobase, affy, annotate
R (>= 3.2.2), methods, IRanges, biomaRt (>= 2.34.1),
BiocGenerics, httr, plyr
R (>= 3.6.0), stats, BiocGenerics, org.Hs.eg.db, igraph,
graph, graphite
R (>= 3.3), xcms, CAMERA, LOBSTAHS, methods, utils
R (>= 3.3), DNAcopy, VariantAnnotation (>= 1.14.1)
R (>= 3.5), Biostrings, BiocGenerics,methods
R (>= 3.6), parallel, GenomicRanges (>= 1.13.3), Rbowtie
R (>= 2.12.0), methods, VariantAnnotation (>= 1.25.11),
Biostrings (>= 2.47.6), Biobase
R (>= 2.15), methods, S4Vectors (>= 0.9.25), IRanges,
GenomicRanges, SummarizedExperiment, Rsamtools,
GenomicAlignments, rtracklayer
R(>= 3.5.0), ggplot2, pathview, edgeR, methods
R (>= 3.6), ExperimentHub, ExperimentHubData (>= 1.9.2)
R (>= 3.6), IRanges (>= 2.19.7), S4Vectors (>= 0.23.18),
GenomicRanges, Modstrings
R (>= 3.1.1), affy, BiocGenerics, methods
R (>= 3.2.1), stats, methods, Rmpfr, gmp
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi
(>= 1.11.39), GenomicFeatures, GO.db, org.Rn.eg.db,
TxDb.Rnorvegicus.UCSC.rn5.refGene
R (>= 3.5.0), methods, GenomicRanges, Rsamtools, baySeq
doParallel, foreach, parallel, iterators, data.table, stringr,
survival, arm, MASS, stats, utils, methods
R (>= 3.0.0), BiocGenerics, S4Vectors (>= 0.9.25),
GenomicRanges, MASS, cluster, ff, fields, ggplot2 (>= 0.9.2),
gplots, gridExtra, limma, matrixStats, methods, illuminaio,
methylumi, plyr
R (>= 3.6.0), Biobase, ggplot2, limma, methods
methods, GenomeInfoDb (>= 1.1.3), GenomicRanges (>= 1.31.8),
Biostrings (>= 2.47.6)
R (>= 3.3.0), methods, utils, stats, stats4, BiocGenerics (>=
0.31.1)
R (>= 3.5.0), IRanges (>= 2.13.15), GenomicRanges (>=
1.31.10), Rsamtools (>= 1.31.2), SummarizedExperiment, methods
R (>= 3.1), GenomicRanges, Rsamtools, data.table, checkmate
R (>= 2.10), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges,
BSgenome (>= 1.33.9)
R (>= 3.3.1), EBcoexpress, MASS, igraph, pvclust (>= 2.0-0),
gbm (>= 2.1.1), limma, DMwR (>= 0.4.1), matrixStats, Hmisc
R (>= 3.4), Biobase, BiocParallel, cluster, matrixStats,
stats, graphics, utils
R (>= 3.4), smoothie, GenomicRanges, IRanges,
SummarizedExperiment
BiocGenerics (>= 0.23.3), BiocParallel, Biostrings (>=
2.47.6), Rsamtools (>= 1.31.2), GenomicAlignments (>= 1.15.6)
R (>= 3.2.0), MLInterfaces, Biobase, e1071, BiocParallel,
survival
R (>= 3.1.0), VariantAnnotation, GenomicRanges, NMF
R (>= 3.6), Seurat, SingleCellExperiment,
SummarizedExperiment, dplyr
R (>= 3.6), S4Vectors (>= 0.23.18), IRanges, Biostrings
GenomicRanges, rtracklayer, VariantAnnotation, BiocGenerics, R
(>= 3.6.0)
R (>= 3.6), tidyr, SummarizedExperiment, S4Vectors,
BiocGenerics, methods, UpSetR, rlang, stringr, utils,
BiocParallel, ggplot2, mclust, dplyr, digest, sessioninfo,
crayon, tibble
R (>= 3.2), methods, GenomicRanges (>= 1.33.6), Biobase,
DelayedArray (>= 0.3.20)
R (>= 3.0), methods, DESeq, DESeq2, edgeR, baySeq, ROC
R (>= 3.3.1), shinydashboard (>= 0.5.3), TCGAbiolinksGUI.data
R (>= 3.6.0), e1071, quadprog, SummarizedExperiment
R (>= 3.6.0), stats, utils, dplyr, methods
R (>= 3.4), Biobase, dplyr, magrittr, tidyr
R (>= 3.5.1), methods, GenomicRanges, Rsamtools (>= 1.9.2),
ggplot2, plyr, openxlsx
R(>= 3.6.0), SingleCellExperiment, S4Vectors (>= 0.23.18)
R (>= 3.5), RaggedExperiment (>= 1.3.11), mongolite
R (>= 3.6), methods, BiocGenerics, DelayedArray (>= 0.7.28)
R (>= 3.5.0), BiocGenerics (>= 0.13.6), GenomicRanges (>=
1.27.6), SummarizedExperiment (>= 1.5.3)
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.15.2), GenomicRanges (>= 1.37.4), SummarizedExperiment
(>= 1.9.9), Rsamtools (>= 1.99.0)
R (>= 3.6.0), S4Vectors (>= 0.21.24), SummarizedExperiment (>=
1.13.0), GenomicRanges, GDSArray (>= 1.3.0), DelayedDataFrame
(>= 1.0.0)
R (>= 3.0.0), methods, BiocGenerics (>= 0.25.1),
VariantAnnotation (>= 1.13.29)
S4Vectors (>= 0.17.33), IRanges (>= 2.13.12), GenomicRanges
(>= 1.31.8), VariantAnnotation (>= 1.11.16), methods
R (>= 3.3.0), GenomicRanges, ggplot2, grid
R (>= 3.6), adductData, ExperimentHub, AnnotationHub
R (>= 3.5.0), AnnotationHub, ExperimentHub (>= 1.7.0),
SingleCellExperiment
R (>= 2.7), methods, BiocGenerics (>= 0.1.0), S4Vectors (>=
0.9.25), Biobase (>= 2.15.1), affy, makecdfenv, Biostrings,
hypergraph
R (>= 3.3), methods, stats, ggplot2, graphics, BiocParallel,
ellipse
R (>= 3.4), stats, utils, methods, rmarkdown, knitr,
prettydoc, yaml
R (>= 2.3.0), methods, GenomicRanges, abind, parallel
R (>= 3.6.0), SummarizedExperiment, ExperimentHub
R (>= 3.3), wateRmelon (>= 1.25.0), gdsfmt (>= 1.0.4),
methods, minfi (>= 1.21.0), Biobase, methylumi
R (>= 3.4.0), methods, BiocGenerics, SummarizedExperiment,
GenomicRanges
R (>= 3.6), GenomicRanges, cowplot, breakpointRdata
R (>= 3.5), methods, BiocGenerics, GenomicRanges (>= 1.29.14),
SummarizedExperiment (>= 1.9.18)
R (>= 3.5), S4Vectors (>= 0.9.25), IRanges (>= 2.3.23),
GenomeInfoDb, GenomicRanges, foreach, iterators, methods,
parallel, locfit
R (>= 3.6.0), Biobase, IRanges, methods, GenomicRanges
R (>= 2.15), methods, VariantAnnotation (>= 1.15.15)
Biostrings, GenomicRanges, IRanges, Gviz, S4Vectors,
ensembldb, AnnotationFilter, data.table
R (>= 2.10), methods, BiocGenerics (>= 0.1.0), S4Vectors (>=
0.17.25), IRanges (>= 2.13.12), GenomicRanges (>= 1.31.8),
ShortRead
R (>= 3.2.0), GenomicRanges, IRanges, methods, Biobase, MASS,
graphics, stats, changepoint
stats, utils, graphics, grDevices, datasets, base, biomaRt,
GenomicRanges, R (>= 3.1.0)
R (>= 3.3), GenomicRanges, ggplot2, chromstaRData
R (>= 2.15), BiocGenerics (>= 0.1.0), methods, stats
R (>= 3.5.0), SingleCellExperiment, SummarizedExperiment,
BiocGenerics
R (>= 3.0.0), methods, BiocParallel, baySeq, graphics, stats,
utils
R (>= 2.12), methods, utils, stats, graphics, parallel,
GenomicRanges
R (>= 3.6.0), grid, utils, biomaRt, Gviz, psych
R (>= 3.5.0), minfi, Homo.sapiens, mixOmics
R (>= 2.10), BiocGenerics, IRanges, GenomicRanges,
BiocParallel
R (>= 3.0), minfi,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
IlluminaHumanMethylationEPICmanifest
R (>= 3.4.0), SummarizedExperiment, S4Vectors
R (>= 3.3), mvtnorm, igraph, gsl, Biobase, stats,
LaplacesDemon, Matrix
R (>= 3.3.0), shiny, shinyjs, CRISPRseek
R (>= 3.6), SummarizedExperiment, ExperimentHub
R (>= 3.0.0), XML, ggplot2, impute, Biobase, BiocStyle
R (>= 3.0.1), IRanges, AnnotationDbi, biomaRt(>= 2.17.1)
R (>= 3.0.1), methods, biomaRt, grImport2, grid, motifStack
R (>= 3.5.0), AnnotationDbi, BiocParallel,
SummarizedExperiment, limma
R (>= 2.13.0), methods, graphics, parallel, Rhtslib, IRanges,
GenomicRanges, SummarizedExperiment, Biostrings, VGAM,
VariantAnnotation (>= 1.13.44),
R (>= 3.5), GenomicRanges, InteractionSet,
SummarizedExperiment
R (>= 2.15.0), utils, Biobase, SummarizedExperiment, GGBase
(>= 3.31.1)
BiocGenerics (>= 0.15.10), GenomicRanges (>= 1.31.18),
GenomicFeatures (>= 1.29.10), AnnotationFilter (>= 1.5.2)
R (>= 3.2.0), methods, Biobase, S4Vectors, IRanges,
GenomicRanges, SummarizedExperiment
R(>= 3.6), GenomicRanges, IRanges, S4Vectors, ggplot2,
foreach, Rtsne, igraph
R (>= 3.4), methods, epivizrServer (>= 1.1.1), Biobase
R (>= 3.1), methods, Homo.sapiens, GenomicFiles (>= 1.5.2)
R (>= 3.5), Rsamtools, GenomicRanges, ShortRead
R (>= 3.3), Biobase, metagenomeSeq(>= 1.12.0)
R (>= 3.6), SummarizedExperiment, MultiAssayExperiment,
cluster (>= 2.0.7-1), fpc (>= 2.2-3)
IRanges (>= 2.5.27), GenomicRanges (>= 1.23.16), Rsamtools
R (>= 3.3.0), S4Vectors, IRanges, GenomicRanges, grid
R (>= 3.1),FNN, psych, gtools, zoo, rgl, grid, VennDiagram
methods, LiquidAssociation, parallel, doParallel, stats,
Hmisc, utils
Biobase, gCMAP (>= 1.3.0), methods, R (>= 3.4), Rook
survcomp, mclust, limma, biomaRt, iC10, AIMS, R (>= 2.10)
R (>= 2.10), BiocGenerics (>= 0.11.3), GenomicRanges (>=
1.17.19), SummarizedExperiment (>= 1.1.6)
R (>= 3.5.0), Rcpp (>= 0.12.17), methods, stats, graphics
R (>= 3.5), Matrix, MultiAssayExperiment, glmnet
Biobase, AnnotationDbi, GO.db, CompQuadForm, stringr
R (>= 2.11.0), BiasedUrn, geneLenDataBase (>= 1.9.2)
R (>= 3.5.0), grid, Homo.sapiens,
TxDb.Hsapiens.UCSC.hg38.knownGene,
R (>= 3.0.2), MASS, parallel, S4Vectors (>= 0.17.25), IRanges
(>= 2.13.12), GenomeInfoDb, GenomicRanges (>= 1.31.8),
GenomicAlignments (>= 1.15.6), rtracklayer (>= 1.39.7)
R (>= 3.1.2), grid, IRanges, GenomicRanges
Biostrings, GenomicAlignments, BiocParallel, hiAnnotator, R
(>= 3.0)
R (>= 3.6), igraph (>= 1.0.1), AnnotationHub(>= 2.6.5),
MultiAssayExperiment(>= 1.4.9), SummarizedExperiment(>= 1.8.1)
R (>= 3.5.0), GenomicRanges, GenomicAlignments, BrowserViz (>=
2.7.20)
R(>= 3.6), methods, stats, graphics, grid, lattice, grDevices,
flowCore
R (>= 3.5.0), methods, AnnotationDbi (>= 1.43.1),
AnnotationHub
R (>= 3.5), DiscriMiner, SummarizedExperiment
R (>= 3.4), regioneR, GenomicRanges, methods
R (>= 3.5), BiocParallel, methods, stats, biglm
R (>= 3.6), R6 (>= 2.0), GenomicRanges, BiocParallel
R (>= 3.5.0), R6 (>= 2.0), GenomicRanges, BiocParallel
R(>= 3.0), Biobase, limma, glmnet, methods, RColorBrewer
R (>= 3.4), metagenomeSeq (>= 1.17.1), methods, data.table,
Biobase, digest
R (>= 3.6), data.table (>= 1.12.4), SummarizedExperiment
R (>= 2.10), grid, BiocGenerics, IRanges, GenomeInfoDb,
GenomicRanges, Biobase (>= 2.34.0), org.Hs.eg.db
R (>= 3.3.0), GenomicRanges (>= 1.18.1), methods
R (>= 3.2.0), methods, grDevices, graphics, stats, utils,
GenomicRanges, SummarizedExperiment (>= 0.2.0), Rsamtools
R (>= 3.2), Biobase (>= 2.22.0), miRcompData
R (>= 3.3), minfi (>= 1.21.2),
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
R (>= 3.3.0), minfi (>= 1.21.2),
IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19
methods, BiocGenerics (>= 0.15.3), GenomicRanges,
SummarizedExperiment (>= 1.1.6), Biostrings, bumphunter (>=
1.1.9)
R (>= 3.5), methods, ggplot2, grDevices, MultiAssayExperiment
R (>= 2.15.1), methods, grImport2, grid, MotIV, ade4,
Biostrings
R (>= 3.4.0), methods, BiocGenerics, SummarizedExperiment,
limma
R (>= 2.10), methods, BiocGenerics, Biobase
R (>= 3.6), ExperimentHub, SingleCellExperiment
R (>= 2.14.0), flowCore(>= 1.51.7), RcppArmadillo, methods, BH
R (>= 2.15.1), Rgraphviz, methods, minet, mclust, reshape2
R (>= 3.6.0), BiocGenerics, ggplot2, tibble (>= 1.3.1)
R (>= 3.3), Biobase, illuminaio, quadprog
R (>= 3.4), webshot, shiny, shinyFiles, scatterplot3d
R (>= 2.7.0), methods, AnnotationHub (>= 1.46.0),
AnnotationDbi, BiocStyle
R (>= 3.0.0), methods, Biobase, BiocGenerics,
R (>= 3.4), cn.mops, methods, utils, stats, graphics
R (>= 3.3.0), methods, ggplot2, gridExtra
R (>= 3.1.0), methods, DBI (>= 0.5-1), RSQLite (>= 1.1),
BiocGenerics, S4Vectors
R (>= 3.5), BiocGenerics, IRanges (>= 2.12.0), GenomicRanges
(>= 1.28.4)
R (>= 3.2.0), methods, Rsamtools (>= 1.99.1), GenomicRanges
R (>= 3.6), BiocGenerics, SummarizedExperiment
reshape, ggplot2, Biostrings, biovizBase, brew, xtable,
testthat
R (>= 3.1.2), GenomicRanges, IRanges, methods
R (>= 3.2), Biobase, rcdk, fingerprint, rcellminerData
R (>= 2.7.0), methods, AnnotationDbi (>= 1.33.0)
R (>= 2.13.0), GenomicRanges, GenomicAlignments, ggplot2,
ComplexHeatmap
R (>= 3.4), SummarizedExperiment, ExperimentHub
R (>= 3.3), methods, GenomicRanges (>= 1.37.2)
R (>= 3.4.0), biclust, SummarizedExperiment
R (>= 3.5.0),SummarizedExperiment, methods, Rcpp, shiny
R (>= 3.5), SingleCellExperiment (>= 1.4), Seurat (>= 2.3.4),
tensorflow, purrr, irlba, Rtsne, ggplot2, methods, utils, FNN,
PMA
R (>= 3.6), SummarizedExperiment, dynamicTreeCut,
SingleCellExperiment
R (>= 3.4), ggplot2, methods, SingleCellExperiment
SingleCellExperiment (>= 1.7.4), Seurat, ggplot2
R (>= 3.4), methods, SummarizedExperiment
R (>= 3.0.0), methods, baySeq (>= 2.9.0), S4Vectors, parallel,
GenomicRanges, ShortRead, stats
R (>= 3.6), GenomicRanges (>= 1.26.4), VariantAnnotation(>=
1.20.3)
R (>= 3.0.2), GenomicRanges (>= 0.1.0), Biostrings (>=
2.15.0), methods
R (>= 3.5), ExperimentHub, AnnotationHub
methods, BiocGenerics (>= 0.3.2), shiny (>= 0.13.2), minfi (>=
1.18.2), IlluminaHumanMethylation450kmanifest, matrixStats, R
(>= 3.0.0)
R (>= 3.5), Biobase, SummarizedExperiment, survival, CoxBoost,
BiocGenerics
R (>= 3.5), SummarizedExperiment, SingleCellExperiment,
DelayedArray, Biobase
R (>= 3.2.0), BiocGenerics, SummarizedExperiment
R (>= 3.3), Biobase, igraph, limma, GSEABase, gtools, splines,
GeneNet (>= 1.2.13), longitudinal (>= 1.1.12), FIs
SummarizedExperiment, pheatmap, survival, survminer,
clustvarsel, stats, utils
R (>= 3.2), mgcv, genefilter, BiocParallel
Rsamtools (>= 1.31.2), Biostrings, ShortRead (>= 1.37.1),
methods
R (>= 3.5), GenomicRanges, Structstrings
R (>= 3.5), GenomicRanges, Modstrings, Structstrings, tRNA
R (>= 2.15.0), methods, limma, sigPathway, anota, DESeq,
edgeR, RankProd, topGO, org.Hs.eg.db, GOSemSim, Heatplus,
gplots, plotrix, Biobase
R (>= 3.6), AnnotationHub (>= 2.16), ExperimentHub (>= 1.0)
R (>= 3.3.0), methods, utils, ProtGenerics
R (>= 3.1.0), grDevices, methods, GenomicRanges, grid
R (>= 3.5.0), ggplot2, limma, foreach, scales, Biobase,
methods
R (>= 3.4), ChIPpeakAnno,TxDb.Hsapiens.UCSC.hg19.knownGene,
zoo, GenomicRanges, S4Vectors, viper, DiffBind, locfit
R (>= 2.10), Biobase, limma, methods, matrixStats, methylumi,
lumi, ROC, IlluminaHumanMethylation450kanno.ilmn12.hg19,
illuminaio
R (>= 3.2), GenomicRanges (>= 1.31.8), Rsamtools
R (>= 2.14.0), methods, Biobase, BiocParallel (>= 1.8.0),
MSnbase (>= 2.9.3)
R (>= 3.3.0), methods, BiocGenerics (>= 0.15.3),
SummarizedExperiment
Homo.sapiens, geuvPack, MultiAssayExperiment (>= 1.3.14)
R (>= 3.4), methods, SummarizedExperiment,
SingleCellExperiment
R (>= 4.0.0), grid, GenomicRanges (>= 1.31.8),
SummarizedExperiment (>= 0.2.0), GenomicAlignments (>= 1.15.6)
R (>= 3.6), methods, Biobase, MSnbase (>= 2.9.3)
R (>= 4.0), rtracklayer, GenomeInfoDb, S4Vectors
R (>= 3.5.0), BSgenome (>= 1.54.0),
BSgenome.Hsapiens.UCSC.hg19
R (>= 3.5), shiny, igraph, shinyBS, pathview, DT
SummarizedExperiment, GenomicRanges, IRanges, S4Vectors,
rtracklayer
R (>= 3.5.0), RBGL, graph, methods, hash, RCurl, Rgraphviz,
XML, ggplot2
R (>= 3.3), minfi, ChAMPdata (>= 2.6.0),DMRcate,
Illumina450ProbeVariants.db,IlluminaHumanMethylationEPICmanifest,
DT
R (>= 3.6), stats, utils, graphics, infotheo, lattice,
latticeExtra, httr, jsonlite
R (>= 4.0.0), foreach, parallel, doParallel, igraph
R(>= 4.0.0), R.utils, DESeq2, BiocParallel
R (>= 4.0.0), SummarizedExperiment, methods, S4Vectors,
BiocParallel, GenomicRanges, IRanges, fdrtool
R (>= 3.3), methods, Biobase, BiocParallel, bsseq
R (>= 3.4), methods, stats4, matrixStats, BiocGenerics (>=
0.31.5), S4Vectors (>= 0.25.15), IRanges (>= 2.17.3)
R (>= 3.1.2), methods, grid, ComplexHeatmap (>= 2.4.2),
GenomicRanges
R (>= 3.5.0), SGSeq, Matrix, SummarizedExperiment
utils, BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData
(>= 1.17.3)
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.19.3),
BiocFileCache (>= 1.5.1)
R (>= 4.0.0), stats, methods, graphics, GGally, network, sna,
scales, matrixStats
R (>= 2.7.0), methods, AnnotationDbi (>= 1.49.2)
R (>= 3.6), methods, Biobase, BiocParallel
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.25.3),
S4Vectors (>= 0.25.14)
R (>= 3.5), Rcpp, methods, BiocGenerics (>= 0.13.11), Biobase,
annotate, cluster
R (>= 3.5.0), methods, BiocGenerics, S4Vectors, IRanges,
GenomicRanges, Biostrings
R (>= 3.6.0), SingleCellExperiment, SummarizedExperiment
R (>= 3.6), AnnotationHub (>= 2.15), ExperimentHub (>= 1.0),
Biostrings (>= 2.51), gplots (>= 3.0), protViz (>= 0.4),
ShortRead (>= 1.41)
R(>= 3.6.0), igraph, graphics, methods, utils
R (>= 2.14.0), methods, BiocGenerics (>= 0.15.10),
AnnotationDbi (>= 1.33.15), GenomicFeatures (>= 1.39.4)
R (>= 3.2.0), methods, IRanges, biomaRt (>= 2.34.1),
BiocGenerics, httr, plyr
R (>= 4.0), parallel, GenomicRanges, Rbowtie
R (>= 3.5.0), BiocGenerics, BSgenome.Celegans.UCSC.ce2,
multtest, Biostrings, BSgenome, ChIPpeakAnno
R (>= 3.6), IRanges (>= 2.21.6), S4Vectors (>= 0.25.14),
GenomicRanges, Modstrings
boot, SummarizedExperiment, fission, knitr, methods
R (>= 3.6), limma, edgeR, ReactomeGSA, Seurat
doParallel, foreach, parallel, iterators, data.table, stringr,
survival, arm, stats, utils, methods
R (>= 3.6.0), GenomicRanges, IRanges, Rsamtools, GenomeInfoDb,
BSgenome.Hsapiens.UCSC.hg19
R (>= 4.0), IRanges (>= 2.13.15), GenomicRanges (>= 1.31.10),
Rsamtools (>= 1.31.2), SummarizedExperiment, methods
R (>= 3.6), RefFreeEWAS, EpiDISH, limma, nnls
R (>= 3.6.0), GenomicRanges, ggplot2, grid
R (>= 3.5.0), methods, BiocGenerics, SummarizedExperiment,
GenomicRanges
R (>= 3.5), methods, BiocGenerics, GenomicRanges (>= 1.33.6),
SummarizedExperiment (>= 1.17.4)
R (>= 4.0.0), AnVIL, MultiAssayExperiment
R (>= 4.0), EBImage, SingleCellExperiment, methods
R (>= 2.13.0), methods, graphics, parallel, IRanges,
GenomicRanges, SummarizedExperiment, Biostrings, VGAM,
VariantAnnotation (>= 1.13.44),
R (>= 4.0.0), methods, stats, utils, graphics, Rcpp
R (>= 3.5), Rsamtools, GenomicRanges, ShortRead, pipeFrame
circlize, GenomicRanges, graphics, R (>= 4.0)
R (>= 3.5.0), GenomicRanges, GenomicAlignments, BrowserViz (>=
2.9.1)
R (>= 3.5), BiocParallel, Matrix, methods, stats, biglm
R (>= 4.0.0), DESeq2, limma, locfit, splines
R (>= 3.4.0), EDASeq, DESeq, limma, qvalue
R (>= 2.10), grid, BiocGenerics, IRanges, GenomeInfoDb (>=
1.22.0), GenomicRanges, Biobase (>= 2.34.0), org.Hs.eg.db
R (>= 3.5.0), GenomicRanges (>= 1.18.1), methods
R (>= 3.6.0), IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICanno.ilm10b4.hg19
dplyr, optimalFlowData, rlang (>= 0.4.0)
R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA,
ggplot2, Hmisc
R (>= 3.2), Biobase, rcellminerData (>= 2.0.0)
R (>= 4.0.0), GenomicRanges, GenomicAlignments, ggplot2,
ComplexHeatmap
R (>= 3.6.0),SummarizedExperiment, methods, Rcpp
SingleCellExperiment (>= 1.7.4), Seurat, ggplot2 (>= 3.2.1),
shiny
R (>= 4.0), ggplot2, ggridges, SummarizedExperiment,
BiocGenerics
R (>= 3.5.0), grDevices, methods, GenomicRanges, grid
R (>= 3.6.0), ggplot2, limma, foreach, scales, Biobase,
methods
methods, grDevices, stats, utils, parallel, edgeR, limma,
AnnotationDbi
R (>= 4.0.0), methods, Biobase, MSnbase (>= 2.14.2)
ROntoTools, GSA, PADOG, limma, graph, stats, utils, parallel,
Biobase, metafor, methods
R (>= 4.0.0), methods, utils, graphics, stats, parallel
R (>= 4.0), biomaRt, SummarizedExperiment
BiocGenerics, BiocParallel, EBImage, graphics, methods,
S4Vectors (>= 0.27.3), stats, ProtGenerics
R (>= 3.3), minfi, ChAMPdata (>= 2.6.0),DMRcate,
Illumina450ProbeVariants.db,IlluminaHumanMethylationEPICmanifest,
DT, RPMM
R (>= 3.5.0), Biostrings (>= 2.35.12), RSQLite (>= 1.1),
stats, parallel
R (>= 4.0.0), SummarizedExperiment, methods, S4Vectors,
BiocParallel, GenomicRanges, IRanges
R (>= 3.4), methods, stats4, Matrix, BiocGenerics (>= 0.31.5),
MatrixGenerics (>= 1.1.3), S4Vectors (>= 0.27.2), IRanges (>=
2.17.3)
R (>= 4.0), GenomicRanges, SummarizedExperiment
R (>= 3.1.2), methods, grid, ComplexHeatmap (>= 2.5.1),
GenomicRanges
R (>= 4.0.0), SummarizedExperiment, SingleCellExperiment
R (>= 2.7.0), methods, AnnotationDbi (>= 1.51.3)
R (>= 3.1.0), methods, BiocGenerics (>= 0.11.2),
MatrixGenerics, GenomicRanges (>= 1.31.16),
SummarizedExperiment, BiocParallel (>= 1.1.0), Rsamtools (>=
1.17.29), rtracklayer (>= 1.25.3)
R (>= 4.0.0), Ckmeans.1d.dp (>= 4.3.0), GenomicRanges,
biomaRt, ggplot2
R (>= 4.0.0), methods, utils, stats, BiocGenerics (>= 0.36.0),
S4Vectors (>= 0.27.12)
R (>= 3.6.0), Biobase, AnnotationHub, ExperimentHub
SummarizedExperiment, ExperimentHub, R (>= 3.6.0)
R (>= 4.0), SingleCellExperiment, SummarizedExperiment
R (>= 4.0.0), SummarizedExperiment (>= 1.3.81)
R (>= 4.0), SummarizedExperiment, SharedObject(>= 1.3.15)
R(>= 4.0), igraph, graphics, methods, utils, jsonlite
R (>= 4.0.0), IRanges, GenomicRanges, Biostrings (>= 2.26.3),
data.table, rTANDEM
R (>= 3.5.0), methods, grid, BiocGenerics, Biostrings
R (>= 3.5.0), DNAcopy, VariantAnnotation (>= 1.14.1)
R (>= 4.0), S4Vectors (>= 0.27.12), IRanges (>= 2.23.9),
GenomicRanges, Modstrings
R (>= 4.0.0), S4Vectors, dplyr, tibble, BiocSet,
SummarizedExperiment
R (>= 4.0.0), methods, utils, stats, stats4, BiocGenerics (>=
0.36.0)
parallel, preprocessCore, splines, splines2, xgboost,
SCATEData, Rtsne, mclust
R (>= 4.0.0), methods, SingleCellExperiment
R (>= 4.0.0), S4Vectors, BiocParallel, ProtGenerics (>=
1.17.4)
R (>= 3.2), methods, MatrixGenerics (>= 1.1.3), GenomicRanges
(>= 1.41.5), Biobase
R (>= 3.0), methods, DESeq2, edgeR, baySeq, ROC
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3),
MatrixGenerics, GenomeInfoDb (>= 1.15.2), GenomicRanges (>=
1.41.5), SummarizedExperiment (>= 1.19.5), Rsamtools (>=
1.99.0)
R (>= 3.5.0), methods, BiocGenerics (>= 0.25.1),
VariantAnnotation (>= 1.13.29)
R (>= 4.0), GenomicRanges, IRanges, ggplot2
R(>= 4.0.0), SummarizedExperiment(>= 1.1.6), S4Vectors(>=
0.22.1), IRanges
R (>= 3.5), GenomicRanges, cowplot, breakpointRdata
R (>= 4.0), methods, BiocGenerics, GenomicRanges (>= 1.41.5),
SummarizedExperiment (>= 1.19.5)
R (>= 3.5.0), BiocGenerics (>= 0.1.0), methods, stats
R (>= 3.6.0), SingleCellExperiment, SummarizedExperiment (>=
1.15.4), BiocGenerics
R (>= 3.6), SummarizedExperiment, MultiAssayExperiment,
cluster (>= 2.0.9), fpc (>= 2.2-3), randomForest (>= 4.6.14),
flexmix (>= 2.3.15)
R (>= 4.0), methods, CAMERA, xcms (>= 1.35)
R (>= 4.0), R6 (>= 2.0), GenomicRanges, BiocParallel
R (>= 4.0.0), BiocGenerics, ggplot2, tibble (>= 1.3.1)
R (>= 4.0.0), SummarizedExperiment, S4Vectors
R (>= 4.0), Biostrings, GenomicRanges, IRanges, BSgenome,
BiocParallel
R (>= 3.6.0), stringr, ape, Biostrings, DECIPHER, parallel,
reshape2, phangorn, sangerseqR, gridExtra, shiny,
shinydashboard, shinyjs, data.table, plotly, DT, zeallot,
excelR, shinycssloaders, ggdendro, shinyWidgets, openxlsx,
tools, rmarkdown, kableExtra, seqinr, BiocStyle, logger
R (>= 3.5), SingleCellExperiment (>= 1.4), Seurat (>= 2.3.4),
tensorflow, purrr, irlba, Rtsne, ggplot2, methods, utils, FNN
R (>= 4.0), S4Vectors, SingleCellExperiment,
dplyr, ggalluvial, ggplot2, reshape2, R (>= 4.0)
R (>= 4.0), ExperimentHub, AnnotationHub, rmarkdown
R (>= 4.0), SummarizedExperiment, SingleCellExperiment,
DelayedArray, Biobase
R (>= 3.6.0), ggplot2, limma, BiocParallel, scales, Biobase,
methods
R (>= 3.5.0), methods, Biobase, BiocParallel (>= 1.8.0),
MSnbase (>= 2.15.3)
R (>= 4.1), minfi(>= 1.36.0), ExperimentHub
R (>= 4.0), shiny, igraph, shinyBS, pathview, DT
R (>= 4.0), reticulate, methods, SummarizedExperiment, knitr
R (>= 4.1), Seurat (>= 4.0.1), SingleCellExperiment
R (>= 3.5), genomeIntervals, randomForest
R (>= 3.5.0), methods, grid, graphics, stats, grDevices
R (>= 4.1), BiocGenerics, SummarizedExperiment
R (>= 3.5.0), Biostrings (>= 2.59.1), RSQLite (>= 1.1), stats,
parallel
R (>= 4.0.0), methods, stats4, Matrix, BiocGenerics (>=
0.37.0), MatrixGenerics (>= 1.1.3), S4Vectors (>= 0.27.2),
IRanges (>= 2.17.3)
MatrixGenerics (>= 1.4.3), DelayedArray (>= 0.17.6)
utils, BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData
(>= 1.21.3)
R (>= 4.0.0), SummarizedExperiment, SingleCellExperiment,
SpatialExperiment, TreeSummarizedExperiment
R (>= 4.1), mclust, BiocParallel, SummarizedExperiment
R (>= 2.7.0), methods, AnnotationDbi (>= 1.53.1)
R (>= 3.5), Biobase, GSEABase, hgu95a.db
R (>= 4.0.0), methods, utils, stats, BiocGenerics (>= 0.37.0),
S4Vectors (>= 0.29.19)
R (>= 3.1), methods, Biobase, GenomicRanges, S4Vectors
R (>= 4.1), ExperimentHub, AnnotationHub
R (>= 3.5.0), S4Vectors, SingleCellExperiment,
SummarizedExperiment, methods, rhdf5, BiocIO
R (>= 4.1), HDF5Array, RnBeads, snpStats, crlmm
SummarizedExperiment (>= 1.20.0), plotly (>= 4.9.3), shiny (>=
1.6.0)
data.table, parallel, utils, stats, R (>= 4.1)
R (>= 4.1), SingleCellExperiment, SummarizedExperiment,
SpatialExperiment
R (>= 4.1), SummarizedExperiment, ExperimentHub
R (>= 4.1), Biobase, SingleCellExperiment, MAST
R (>= 4.1.0), SummarizedExperiment (>= 1.3.81)
R (>= 4.1), Rsamtools, GenomicFeatures, GenomicAlignments
methods, GenomeInfoDb (>= 1.1.3), GenomicRanges (>= 1.31.8),
Biostrings (>= 2.47.6), R (>= 3.5.0)
R (>= 4.0.0), methods, utils, stats, stats4, BiocGenerics (>=
0.37.0)
R (>= 3.5.0), gdsfmt (>= 1.27.4), methods, DelayedArray
R (>= 4.0.0), S4Vectors, BiocParallel, ProtGenerics (>=
1.23.8)
GenomicRanges, rtracklayer, VariantAnnotation, BiocGenerics, R
(>= 4.1.0)
R (>= 4.0.0), methods, MatrixGenerics (>= 1.1.3),
GenomicRanges (>= 1.41.5), Biobase
R (>= 4.1), SingleCellExperiment, BiocFileCache
R(>= 3.6.0), SingleCellExperiment, S4Vectors (>= 0.23.18),
Biostrings
Biostrings, BSgenome, GenomicRanges, R (>= 4.1)
R (>= 4.0.0), methods, BiocGenerics (>= 0.37.0),
MatrixGenerics, GenomeInfoDb (>= 1.15.2), GenomicRanges (>=
1.41.5), SummarizedExperiment (>= 1.19.5), Rsamtools (>=
1.99.0)
R (>= 2.5.0), methods, Biobase, BiocManager, GO.db
R (>= 2.6.0), tools, methods, utils, parody, Biobase, affy
R (>= 3.5.0), BSgenome.Drerio.UCSC.danRer7, methods
R (>= 3.7.0), grid, utils, biomaRt, Gviz, psych
R (>= 4.1.0), SummarizedExperiment, RaggedExperiment,
BiocSingular, HDF5Array
R (>= 4.1.0), SummarizedExperiment, TreeSummarizedExperiment
R (>= 4.1), survcomp, biomaRt, iC10, AIMS
R (>= 4.1), Matrix, MultiAssayExperiment, glmnet
R (>= 4.1), SingleCellExperiment, cytomapper,
R (>= 4.1), SummarizedExperiment, TreeSummarizedExperiment,
mia (>= 0.99), ggplot2, ggraph (>= 2.0)
R (>= 4.1), SummarizedExperiment, SingleCellExperiment,
TreeSummarizedExperiment (>= 1.99.3)
R (>= 4.1), SummarizedExperiment, TreeSummarizedExperiment,
MultiAssayExperiment
R (>= 4.1), MultiAssayExperiment (>= 1.8.3)
R (>= 3.5.0), minfi (>= 1.21.2),
IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19
R (>= 4.0), SummarizedExperiment, topGO, stats
R (>= 3.6.0), Biobase, methods, annotate, Heatplus, BMA,
ggplot2, Hmisc
R (>= 3.5.0), methods, Rsamtools (>= 1.99.1), GenomicRanges
R (>= 4.1), GenomicRanges, parallel, doParallel, foreach,
doRNG, methods
R (>= 4.0.0), stringr, ape, Biostrings, DECIPHER, parallel,
reshape2, phangorn, sangerseqR, gridExtra, shiny,
shinydashboard, shinyjs, data.table, plotly, DT, zeallot,
excelR, shinycssloaders, ggdendro, shinyWidgets, openxlsx,
tools, rmarkdown, kableExtra, seqinr, BiocStyle, logger
R (>= 3.6), SingleCellExperiment (>= 1.4), Seurat (>= 2.3.4),
tensorflow, purrr, irlba, Rtsne, ggplot2, methods, utils, FNN
R (>= 4.1), Seurat, SingleCellExperiment, SummarizedExperiment
R (>= 4.1), ExperimentHub, AnnotationHub, rmarkdown
R (>= 4.0), princurve (>= 2.0.4), stats, TrajectoryUtils
R (>= 2.15.0), methods, limma, sigPathway, anota, DESeq2,
edgeR, RankProd, topGO, org.Hs.eg.db, GOSemSim, Heatplus,
gplots, plotrix, Biobase
R (>= 3.5.0), grDevices, methods, GenomicRanges, grid, Rcpp
R (>= 4.0), ChIPpeakAnno,TxDb.Hsapiens.UCSC.hg19.knownGene,
zoo, GenomicRanges, S4Vectors, viper, DiffBind, locfit
R (>= 3.5.0), BSgenome (>= 1.62.0),
BSgenome.Btaurus.UCSC.bosTau9
R (>= 3.5.0), BSgenome (>= 1.60.0),
BSgenome.Hsapiens.UCSC.hg38
R (>= 3.5.0), BSgenome (>= 1.60.0),
BSgenome.Mmusculus.UCSC.mm10
R (>= 4.0.0), methods, utils, graphics, stats
R (>= 4.1.0), biomaRt, SummarizedExperiment
methods, MultiAssayExperiment, R (>= 4.1.0)
R (>= 4.0.0), RBGL, graph, methods, hash, RCurl, Rgraphviz,
XML, ggplot2
R (>= 4.1), GenomicRanges, jsonlite, GenomicFeatures, entropy
R (>= 4.1.0), SummarizedExperiment, methods, S4Vectors,
BiocParallel, GenomicRanges, IRanges, fdrtool
R (>= 3.6.0), parallel, Rcpp (>= 1.0.0), SummarizedExperiment,
knitr, KernSmooth, matrixcalc, rmarkdown
MatrixGenerics (>= 1.5.3), DelayedArray (>= 0.17.6)
R (>= 3.5.0), parallel, doParallel, foreach,
SummarizedExperiment, stats
R (>= 4.1.1), methods, Biobase, SummarizedExperiment, limma,
S4Vectors, xml2
R (>= 2.7.0), methods, AnnotationDbi (>= 1.55.1)
R (>= 3.0.0), igraph, KEGGREST, RCurl, annotate, Biobase (>=
1.12.0), methods, XML, RSQLite, MASS, Heatplus, RColorBrewer
R (>= 3.6), Biobase, NanoStringNCTools, S4Vectors
R (>= 4.0.0), methods, utils, stats, BiocGenerics (>= 0.39.2),
S4Vectors (>= 0.29.19)
Biobase, AnnotationHub, ExperimentHub, SummarizedExperiment, R
(>= 3.6.0)
R(>= 3.5.0), keras, limma, e1071, SingleCellExperiment
R (>= 3.5.0), methods, BiocGenerics, Biostrings
R (>= 4.1), parallel, GenomicRanges, Rbowtie
R (>= 3.1.1), affy, BiocGenerics, BiocStyle, methods,
rmarkdown
R (>= 4.0.0), S4Vectors, BiocParallel, ProtGenerics (>=
1.25.1)
R (>= 3.6), EpiDISH, limma, nnls, quadprog
R (>= 3.6.0), S4Vectors (>= 0.21.24), SummarizedExperiment (>=
1.13.0), GenomicRanges,
R(>= 4.1), SummarizedExperiment(>= 1.1.6), S4Vectors(>=
0.22.1), BSgenome, IRanges
R (>= 4.0.0), Rsamtools, GenomicRanges, ShortRead, pipeFrame
R (>= 4.1), mclust, BiocParallel, survival
S4Vectors, adabag, GenomicRanges, R (>= 4.1)
R (>= 4.1.0), BiocParallel, fields, markdown
R (>= 4.1.0), methylclockData, devtools, quadprog
R (>= 4.0), SummarizedExperiment, TreeSummarizedExperiment,
mia (>= 0.99), ggplot2, ggraph (>= 2.0)
R (>= 4.0), SummarizedExperiment, SingleCellExperiment,
TreeSummarizedExperiment (>= 1.99.3), MultiAssayExperiment
R (>= 2.15.1), BiocStyle, Rgraphviz, rmarkdown, methods,
minet, mclust, reshape2
R (>= 4.1.0), ExperimentHub, GenomicRanges, InteractionSet
R (>= 4.1.0), SummarizedExperiment, S4Vectors
R (>= 4.1), KEGGREST, S4Vectors, SummarizedExperiment, igraph,
data.table, methods, stats
R (>= 4.0.0), stringr, ape, Biostrings, DECIPHER, parallel,
reshape2, phangorn, sangerseqR, gridExtra, shiny,
shinydashboard, shinyjs, data.table, plotly, DT, zeallot,
excelR, shinycssloaders, ggdendro, shinyWidgets, openxlsx,
tools, rmarkdown (>= 2.9), knitr (>= 1.33), seqinr, BiocStyle,
logger
R (>= 4.1), SingleCellExperiment, BiocFileCache, data.table,
utils, S4Vectors
R (>= 4.0), methods, epivizr, SummarizedExperiment
R (>= 4.1), ExperimentHub, SummarizedExperiment
SpatialExperiment (>= 1.3.3), R (>= 3.6)
GenomicRanges, rtracklayer, VariantAnnotation,
StructuralVariantAnnotation, BiocGenerics, R (>= 4.0)
GenomicRanges, rtracklayer, BiocGenerics,
StructuralVariantAnnotation, R (>= 4.0)
R (>= 4.1), AnnotationHub (>= 2.16), ExperimentHub (>= 1.0)
R (>= 4.0.0), ggplot2, limma, BiocParallel
R (>= 3.5.0), Biobase, limma, methods, matrixStats, methylumi,
lumi, ROC, IlluminaHumanMethylation450kanno.ilmn12.hg19,
illuminaio
R (>= 3.5.0), methods, S4Vectors, IRanges (>= 1.17.24),
GenomicRanges, SummarizedExperiment (>= 0.2.0), Formula
R (>= 4.0), reticulate, methods, SummarizedExperiment
R (>= 4.2), ggplot2, SingleCellExperiment
R (>= 4.0.0), RBGL, graph, methods, RCurl, Rgraphviz, XML,
ggplot2, rmarkdown
R (>= 3.5.0), ggplot2, DiffBind, GenomicRanges (>= 1.17.19),
BiocParallel
R (>= 4.1.0), methods, S4Vectors (>= 0.18.0),
MultiAssayExperiment (>= 1.6.0), BiocParallel, survival
R (>= 4.1), methods, AnnotationFilter, S4Vectors
R (>= 3.5.0), methods, Biobase, BiocParallel, bsseq, parallel
R (>= 3.5.0), SummarizedExperiment, ggplot2
R (>= 3.6.0), methods, grid, ComplexHeatmap (>= 2.11.0),
GenomicRanges
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 3.3.6),
BiocFileCache (>= 1.5.1)
R (>= 3.5), minfi(>= 1.21.2), ExperimentHub
R (>= 2.7.0), methods, AnnotationDbi (>= 1.57.1)
R (>= 3.5.0), Biobase, SummarizedExperiment
R (>= 3.5.0), GenomicRanges, BiocGenerics
methods, BiocGenerics, S4Vectors (>= 0.17.39), IRanges (>=
2.13.12), GenomicRanges (>= 1.31.10), Biostrings (>= 2.41.3),
BSgenome, GenomicFeatures (>= 1.31.5), VariantAnnotation (>=
1.19.3), Rsamtools, GenomicAlignments (>= 1.15.7), rtracklayer
(>= 1.33.8), GenomeInfoDb, SummarizedExperiment, BiocIO
R (>= 4.0.0), methods, utils, stats, BiocGenerics (>= 0.39.2),
S4Vectors (>= 0.33.3)
R (>= 3.5.0), Biobase, IRanges, GenomicRanges, RColorBrewer,
rtracklayer, graphics, GenomeInfoDb
R (>= 3.5.0), GenomicRanges, Rsamtools, SummarizedExperiment,
edgeR, S4Vectors
R (>= 4.1.0), methods, BiocFileCache, utils
R (>= 4.0), ggplot2, parallel, stats, S4Vectors
R (>= 4.2.0), SummarizedExperiment (>= 1.3.81)
R (>= 3.5.0), BiocGenerics, IRanges, GenomicRanges, S4Vectors,
SummarizedExperiment
R (>= 3.5.0), methods, BiocGenerics (>= 0.8.0)
R (>= 3.0.0), BiocGenerics, S4Vectors (>= 0.9.25),
GenomicRanges, MASS, cluster, ff, fields, ggplot2 (>= 0.9.2),
gplots, grid, gridExtra, limma, matrixStats, methods,
illuminaio, methylumi, plyr
R (>= 4.0.0), ggplot2, RnaSeqSampleSizeData
R (>= 3.5.0), ExperimentHub, GenomicAlignments, GenomicRanges,
base
R (>= 3.5.0), GenomicRanges, Rsamtools, data.table, checkmate
R (>= 3.5.0), VariantAnnotation, GenomicRanges, NMF
methods, utils, RSQLite, BiocGenerics (>= 0.13.8)
R (>= 4.1), S4Vectors, Biobase, MSnbase, pRoloc
R (>= 3.5.0), IRanges, GenomicRanges, Gviz
R (>= 4.2.0), AnVIL (>= 1.7.1), MultiAssayExperiment
R (>= 4.0), SingleCellExperiment, Matrix
R (>= 3.5.0), methods, BiocGenerics (>= 0.1.0), S4Vectors (>=
0.17.25), IRanges (>= 2.13.12), GenomicRanges (>= 1.31.8),
ShortRead
R (>= 3.5.0), GenomicRanges, ggplot2, chromstaRData
R (>= 3.5.0), methods, utils, stats, graphics, parallel,
GenomicRanges
R (>= 4.0.0), grid, utils, biomaRt, Gviz, psych
R (>= 3.5.0), methods, topGO, GenomicRanges
R (>= 3.5.0), BiocGenerics, IRanges, GenomicRanges,
BiocParallel
R (>= 3.5.0), minfi,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
IlluminaHumanMethylationEPICmanifest
R (>= 3.5.0), GenomicFeatures, GSEABase (>= 1.24.0)
R (>= 3.5.0), GenomicRanges, SummarizedExperiment
R (>= 3.5.0), IRanges, AnnotationDbi, biomaRt (>= 2.17.1)
R (>= 3.5.0), BiocGenerics (>= 0.15.10), GenomicRanges (>=
1.31.18), GenomicFeatures (>= 1.29.10), AnnotationFilter (>=
1.5.2)
R (>= 3.5.0), methods, Biobase, S4Vectors, IRanges,
GenomicRanges, SummarizedExperiment
BiocParallel, R (>= 4.2.0), GenomicRanges, ggplot2,
SummarizedExperiment, tibble
R (>= 3.5.0), MASS, parallel, S4Vectors (>= 0.17.25), IRanges
(>= 2.13.12), GenomeInfoDb, GenomicRanges (>= 1.31.8),
GenomicAlignments (>= 1.15.6), rtracklayer (>= 1.39.7)
ggfortify, R (>= 4.1), SummarizedExperiment (>= 1.16)
R (>= 3.5.0), Biostrings, GenomicAlignments, BiocParallel,
hiAnnotator
R (>= 3.5.0), GenomicRanges, GenomicAlignments, BrowserViz (>=
2.17.1)
R (>= 4.2), SingleCellExperiment, cytomapper,
R (>= 3.5.0), methods, BiocGenerics, grid
R (>= 4.1.0), BiocParallel, fields, markdown, fdrtool, fgsea,
ggplot2, ggrepel
R (>= 3.5.0), methods, grDevices, graphics, stats, utils,
GenomicRanges, SummarizedExperiment (>= 0.2.0), Rsamtools
R (>= 3.5.0), minfi (>= 1.21.2),
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
R (>= 3.5.0), methods, BiocGenerics, SummarizedExperiment,
limma
R (>= 4.1.0), igraph, reticulate, pandaR, yarn
R (>= 3.5.0), cn.mops, methods, utils, stats, graphics
R (>= 3.4), SummarizedExperiment, ExperimentHub, DelayedArray
(>= 0.21.2), HDF5Array (>= 1.23.2)
R (>= 3.5.0), methods, GenomicRanges (>= 1.37.2)
R (>= 3.5.0), methods, baySeq (>= 2.9.0), S4Vectors, parallel,
GenomicRanges, ShortRead, stats
R (>= 3.5.0), BiocGenerics, SummarizedExperiment
R (>= 3.5.0), methods, Rsamtools, Biostrings, reshape,
ggplot2, RColorBrewer, stats
GenomicRanges, rtracklayer, VariantAnnotation,
StructuralVariantAnnotation, BiocGenerics, Biostrings, R (>=
4.0)
R (>= 4.2.0), AnVIL, MultiAssayExperiment
R (>= 4.0.0), ttservice, SingleCellExperiment
R (>= 3.5.0), GenomicRanges, IRanges,
BSgenome.Hsapiens.UCSC.hg19
R (>= 4.2.0), methods, BiocGenerics, S4Vectors
R (>= 3.5.0), methods, BiocGenerics (>= 0.15.3),
SummarizedExperiment
R (>= 3.5.0), igraph, poweRlaw, latex2exp, RSpectra, Rdpack
R (>= 4.0), reticulate, methods, SummarizedExperiment,
basilisk.utils
ProtGenerics, BiocGenerics, BiocParallel, EBImage, graphics,
methods, S4Vectors (>= 0.27.3), stats
R (>= 4.1.0), generics, methods, S4Vectors,
MultiAssayExperiment, BiocParallel, survival
R (>= 3.6.0), parallel, Rcpp (>= 1.0.0), SummarizedExperiment,
knitr, KernSmooth, matrixcalc, rmarkdown, DSS, dendextend,
psych, sva
R (>= 4.0.0), methods, stats4, Matrix, BiocGenerics (>=
0.43.4), MatrixGenerics (>= 1.1.3), S4Vectors (>= 0.27.2),
IRanges (>= 2.17.3)
R (>= 4.2.0), methods, Biobase, SummarizedExperiment, limma,
S4Vectors, xml2, RCurl, jsonlite, BiocStyle
R (>= 2.7.0), methods, AnnotationDbi (>= 1.59.1)
InteractionSet, GenomicRanges, SummarizedExperiment, R (>=
4.1.0)
R(>= 4.1.0), Matrix, parallel, BiocParallel,
SummarizedExperiment, BiocGenerics
R (>= 4.2.0), EBImage, SpatialExperiment
R (>= 4.2), SummarizedExperiment, TreeSummarizedExperiment
R (>= 4.0.0), S4Vectors, BiocParallel, ProtGenerics (>=
1.29.1)
R (>= 4.2.0), SingleCellExperiment, SummarizedExperiment
R (>= 4.1.0), grid, utils, biomaRt, Gviz, psych
R (>= 2.13.0), methods, graphics, parallel, IRanges,
GenomicRanges, SummarizedExperiment, Biostrings, VGAM,
VariantAnnotation (>= 1.27.6),
R (>= 3.5.0), BiocGenerics (>= 0.15.10), GenomicRanges (>=
1.31.18), GenomicFeatures (>= 1.49.6), AnnotationFilter (>=
1.5.2)
R (>= 4.2.0), S4Vectors, IRanges, GenomicRanges, grid
R (>= 4.2), SingleCellExperiment, SpatialExperiment,
cytomapper,
R (>= 3.5), BiocParallel, Matrix, methods, stats
R (>= 4.2.0), igraph, reticulate, pandaR, yarn
R (>= 4.2.0), magrittr, dplyr, ggplot2, edgeR, RUVSeq, DESeq2,
limma, rhdf5, foreach, Rfast, octad.db, stats, httr,
ExperimentHub, AnnotationHub, Biobase, S4Vectors
R (>= 3.6.0), GenomicRanges, IRanges, methods
R(>= 3.6.0), Rcpp, SummarizedExperiment, org.Hs.eg.db
R (>= 3.2.0), grid, GenomicRanges, SummarizedExperiment (>=
0.2.0), GenomicAlignments
R (>= 2.7.0), methods, utils, stats4, BiocGenerics (>=
0.15.10), Biobase (>= 1.17.0), IRanges
R (>= 2.7.0), methods, utils, BiocGenerics (>= 0.15.10),
Biobase (>= 1.17.0), AnnotationDbi (>= 1.31.19), org.Hs.eg.db
R (>= 3.2.2), methods, S4Vectors (>= 0.7.21), IRanges (>=
2.3.23), GenomicRanges, AnnotationHub
R (>= 3.0.0), Biostrings, GenomicAlignments, caTools,
GenomicRanges
R (>= 3.2.1), IRanges, GenomicRanges, plyr, dplyr, magrittr
R (>= 3.1), methods, grid, IRanges, Biostrings, GenomicRanges,
S4Vectors, VennDiagram
R (>= 3.1.2), grid, graphics, stats, grDevices
S4Vectors, IRanges, GenomicRanges, SummarizedExperiment (>=
0.2.0), Rcpp (>= 0.10.1), RcppArmadillo (>= 0.3.4.4)
BiocParallel, Biobase, IRanges (>= 2.1.10), GenomicRanges (>=
1.19.6), DESeq2 (>= 1.9.11)
R (>= 3.0.0), BSgenome.Mmusculus.UCSC.mm10, GenomicRanges,
VariantAnnotation
R (>= 3.2.2), GenomicRanges, SummarizedExperiment, limma,
GenomicAlignments, locfit
R (>= 3.2.0), IlluminaHumanMethylation450kanno.ilmn12.hg19,
Homo.sapiens, ELMER.data
R (>= 3.1.2), grid, ComplexHeatmap (>= 1.4.0), GenomicRanges,
IRanges, locfit
R (>= 3.2.0), IRanges, BiocGenerics, S4Vectors
R (>= 2.10), methods, BiocGenerics (>= 0.15.3), S4Vectors (>=
0.8.6), IRanges (>= 2.3.21), GenomeInfoDb (>= 1.1.20),
GenomicRanges (>= 1.21.6), SummarizedExperiment (>= 0.3.1),
Biostrings (>= 2.37.1), Rsamtools (>= 1.21.4)
R (>= 3.1.0), methods, BiocGenerics (>= 0.11.2),
GenomicRanges, SummarizedExperiment, BiocParallel (>= 1.1.0),
Rsamtools (>= 1.17.29), rtracklayer (>= 1.25.3)
Rsamtools, GenomicFeatures, rtracklayer, GenomicAlignments,
GenomicRanges, ggplot2, grid, IRanges
R (>= 3.2), methods, Biobase, BiocParallel
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>=
0.15.10), S4Vectors (>= 0.8.4)
R (>= 3.2), ggplot2 (>= 2.0.0), Rcpp, grid, reshape2
R (>= 2.14.0), methods, BiocGenerics (>= 0.15.10),
AnnotationDbi (>= 1.31.19), GenomicFeatures (>= 1.21.12)
R (>= 3.0.1), IRanges, GenomicRanges, Biostrings (>= 2.26.3),
data.table, rTANDEM
R (>= 3.2), methods, IRanges, biomaRt, BiocGenerics, httr,
plyr
R (>= 2.12.0), methods, VariantAnnotation, Biostrings, Biobase
R (>= 3.2), graph (>= 1.31.0), httr, RJSONIO, RCurl
R (>= 2.15), methods, IRanges, GenomicRanges,
SummarizedExperiment, Rsamtools, GenomicAlignments, rtracklayer
methods, S4Vectors (>= 0.7.11), IRanges (>= 2.3.7),
GenomeInfoDb (>= 1.1.3), GenomicRanges (>= 1.21.6), XVector (>=
0.9.1), Biostrings (>= 2.37.1)
R (>= 3.1.0), methods, utils, stats, stats4, BiocGenerics (>=
0.15.10)
R (>= 3.2),GenomicRanges, Rsamtools, data.table, checkmate
BiocGenerics (>= 0.11.3), BiocParallel, Biostrings (>=
2.37.1), Rsamtools (>= 1.21.4), GenomicAlignments (>= 1.5.4)
R (>= 3.2.1), MLInterfaces, Biobase, e1071, BiocParallel,
survival
R (>= 2.14.0), lars, DNAcopy, foreach, methods, rebmix,
GenomicRanges, IRanges, doParallel, mvtnorm
R (>= 3.2), methods, GenomicRanges (>= 1.22.1), Biobase
R (>= 3.2.1), methods, GenomicRanges, Rsamtools (>= 1.20.4),
ggplot2, plyr, openxlsx
graphite (>= 1.14), gRbase, graph, locfit, Rgraphviz
R (>= 3.0.0), BiocGenerics (>= 0.13.6), GenomicRanges (>=
1.19.47), SummarizedExperiment (>= 0.2.0)
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.1.3), GenomicRanges (>= 1.19.47), SummarizedExperiment
(>= 0.3.1), Rsamtools (>= 1.19.52)
R (>= 2.15), methods, BiocGenerics, IRanges (>= 2.1.10),
GenomicRanges (>= 1.19.6), SummarizedExperiment (>= 0.1.1),
parallel, GenomeInfoDb
R (>= 2.10), S4Vectors (>= 0.7.20), IRanges (>= 2.3.23),
GenomeInfoDb, GenomicRanges, foreach, iterators, methods,
parallel, locfit
R (>= 2.10), methods, BiocGenerics (>= 0.1.0), S4Vectors (>=
0.0.1), IRanges (>= 1.99.1), GenomicRanges (>= 1.17.7),
ShortRead
R (>= 3.1.0), grid, utils, biomaRt, Gviz (>= 1.10.9), psych
R (>= 3.2.0), GenomicRanges, SummarizedExperiment
BiocGenerics (>= 0.15.10), GenomicRanges, GenomicFeatures
R (>= 2.12.0), methods, Biobase, S4Vectors, IRanges,
GenomicRanges, SummarizedExperiment (>= 0.2.0)
R (>= 3.0.1), methods, Biobase, SummarizedExperiment (>=
0.2.0), rtracklayer
Rsamtools, GenomicFeatures (>= 1.14.5), rtracklayer,
GenomicAlignments
survcomp, mclust, biomaRt, iC10, AIMS, R (>= 2.10)
R (>= 2.10), BiocGenerics (>= 0.11.3), Biobase (>= 2.15.1),
GenomicRanges (>= 1.17.19), SummarizedExperiment
R (>= 2.10.0), methods, BiocGenerics (>= 0.13.8), S4Vectors
(>= 0.7.21), Rsamtools, intervals (>= 0.13.1), ShortRead (>=
1.3.21), genomeIntervals (>= 1.25.1), grid
R (>= 3.0.2), MASS, S4Vectors, IRanges, GenomeInfoDb,
GenomicRanges, GenomicAlignments, rtracklayer, parallel
R (>= 3.2.0), R6 (>= 2.0), GenomicRanges, BiocParallel
R (>= 2.10), grid, BiocGenerics, IRanges, GenomeInfoDb,
GenomicRanges, Biobase (>= 2.5.5), org.Hs.eg.db
methods, BiocGenerics (>= 0.15.3), Biobase (>= 2.17.8),
lattice, GenomicRanges, SummarizedExperiment (>= 0.3.1),
Biostrings, utils, bumphunter (>= 1.1.9)
R (>= 2.15), MSnbase (>= 1.17.1), MLInterfaces (>= 1.37.1),
methods, Rcpp (>= 0.10.3), BiocParallel
R (>= 3.2.2), methods, ggplot2, gridExtra
R (>= 2.10), methods, GenomicRanges (>= 1.21.20)
R (>= 3.1), methods, BiocGenerics, Biobase,
SummarizedExperiment, survival, CoxBoost
methods,rbamtools (>= 2.14.3),refGenome (>=
1.6.0),Biobase,Biostrings (>= 2.28.0)
R (>= 3.1.0), methods, GenomicRanges, grid
R (>= 3.3.0), GenomicRanges, cowplot, AneuFinderData
R (>= 3.2.3), Rsamtools, GenomeInfoDb,
BSgenome.Hsapiens.UCSC.hg19, IRanges, Biostrings
R (>= 3.2), minfi, ChAMPdata, Illumina450ProbeVariants.db
R (>= 3.2), methods, grid, IRanges (>= 2.5.27), Biostrings,
GenomicRanges (>= 1.23.16), S4Vectors (>= 0.9.25), VennDiagram
S4Vectors (>= 0.9.25), IRanges, GenomicRanges,
SummarizedExperiment (>= 1.1.6)
BiocParallel, Biobase, SummarizedExperiment, IRanges (>=
2.5.17), GenomicRanges (>= 1.23.7), DESeq2 (>= 1.9.11),
AnnotationDbi, RColorBrewer, S4Vectors
R (>= 3.3.0), GenomicRanges, SummarizedExperiment
R (>= 3.1.2), grid, ComplexHeatmap (>= 1.9.7), GenomicRanges,
IRanges, locfit
R (>= 3.3), Rsamtools (>= 1.18.2), SummarizedExperiment (>=
1.1.19), GenomicRanges (>= 1.23.16), methods
R (>= 2.10), methods, BiocGenerics (>= 0.15.3), S4Vectors (>=
0.9.40), IRanges (>= 2.5.36), GenomeInfoDb (>= 1.1.20),
GenomicRanges (>= 1.24.2), SummarizedExperiment (>= 0.3.1),
Biostrings (>= 2.37.1), Rsamtools (>= 1.21.4)
R (>= 3.1.0), methods, BiocGenerics (>= 0.11.2), GenomicRanges
(>= 1.23.21), SummarizedExperiment, BiocParallel (>= 1.1.0),
Rsamtools (>= 1.17.29), rtracklayer (>= 1.25.3)
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>=
0.15.10), S4Vectors (>= 0.9.48)
R (>= 3.3.0), GenomicRanges, SummarizedExperiment (>= 1.1.6)
R (>= 3.3), methods, SummarizedExperiment (>= 0.2.0)
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), mzR, BiocParallel, ProtGenerics (>= 1.3.1)
R (>= 3.0), EBImage, imageHTS, SearchTrees, limma,
RColorBrewer, gplots, splots, ggplot2, geneplotter, ChemmineR,
reshape2, plyr
R (>= 3.2.2), methods, IRanges, biomaRt, BiocGenerics, httr,
plyr
R (>= 3.1.1), affy, BiocGenerics, methods, phyloseq
R (>= 3.0.0), BiocGenerics, S4Vectors (>= 0.9.25),
GenomicRanges, MASS, RColorBrewer, cluster, ff, fields, ggplot2
(>= 0.9.2), gplots, gridExtra, limma, matrixStats, methods,
illuminaio, methylumi, plyr
methods, GenomeInfoDb (>= 1.1.3), GenomicRanges (>= 1.21.6),
Biostrings (>= 2.37.1)
R (>= 3.3.0), methods, utils, stats, stats4, BiocGenerics (>=
0.15.10)
IRanges, GenomicRanges (>= 1.23.21), Rsamtools,
SummarizedExperiment, methods
R (>= 3.2), GenomicRanges, Rsamtools, data.table, checkmate
R (>= 3.2), methods, GenomicRanges (>= 1.23.15), Biobase
graphite (>= 1.16), gRbase, graph, locfit, Rgraphviz
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.7.1), GenomicRanges (>= 1.19.47), SummarizedExperiment
(>= 0.3.1), Rsamtools (>= 1.23.10)
S4Vectors (>= 0.9.25), IRanges (>= 1.99.2), GenomicRanges (>=
1.17.7), VariantAnnotation (>= 1.11.16), methods
R (>= 2.7.0), methods, AnnotationDbi (>= 1.33.7)
R (>= 3.3), methods, BiocGenerics, GenomicRanges (>= 1.23.7),
SummarizedExperiment (>= 0.1.1), parallel, limma
R (>= 2.10), S4Vectors (>= 0.9.25), IRanges (>= 2.3.23),
GenomeInfoDb, GenomicRanges, foreach, iterators, methods,
parallel, locfit
R (>= 2.10), methods, BiocGenerics (>= 0.1.0), S4Vectors (>=
0.9.25), IRanges (>= 1.99.1), GenomicRanges (>= 1.17.7),
ShortRead
stats, utils, graphics, grDevices, datasets, base, biomaRt,
GenomicRanges, R (>= 3.3.0)
R (>= 3.3.0), grid, utils, biomaRt, Gviz, psych
R (>= 3.3.0), shiny, ggvis, jsonlite, edgeR, shinyjs
R (>= 3.3.0), GenomicRanges, InteractionSet,
SummarizedExperiment
BiocGenerics (>= 0.15.10), GenomicRanges (>= 1.23.21),
GenomicFeatures (>= 1.23.18)
R (>= 3.2.3), methods, epivizrServer (>= 1.0.1), Biobase
R (>= 2.10), flowCore, fda (>= 2.2.6), cluster, flowWorkspace
survcomp, mclust, limma,biomaRt, iC10, AIMS, R (>= 2.10)
R(>= 3.3), randomForest, e1071, ggplot2, effsize, Biostrings
methods, ggplot2(>= 2.0.0), flowCore, ncdfFlow(>= 2.17.1),
flowWorkspace(>= 3.17.24)
R (>= 3.0.2), MASS, parallel, S4Vectors (>= 0.9.25), IRanges
(>= 2.5.27), GenomeInfoDb, GenomicRanges (>= 1.23.16),
GenomicAlignments, rtracklayer
R (>= 2.12.2), methods, BiocGenerics (>= 0.1.0), Biobase,
S4Vectors, IRanges, MASS, BSgenome, GenomeInfoDb (>=
1.1.3), GenomicRanges (>= 1.17.11)
R(>= 3.2), methods, stats, graphics, grid, lattice, flowCore
R (>= 3.2), DiscriMiner, IRanges, S4Vectors, GenomicRanges,
SummarizedExperiment (>= 0.2.0)
R (>= 3.3.0), R6 (>= 2.0), GenomicRanges, BiocParallel
methods, BiocGenerics (>= 0.15.3), Biobase (>= 2.17.8),
lattice, GenomicRanges, SummarizedExperiment (>= 1.1.6),
Biostrings, bumphunter (>= 1.1.9)
R (>= 2.14.0), flowCore(>= 1.37.15), flowViz, RcppArmadillo,
methods, BH
R (>= 3.3), methods, GenomicRanges (>= 1.21.20)
R (>= 3.2), methods, DBI, RSQLite, seqinr, protViz (>= 0.2.5),
R (>= 3.2), GenomicRanges (>= 1.23.16), Rsamtools
gQTLBase, SummarizedExperiment, GenomicRanges, Homo.sapiens,
dsQTL, geuvPack
methods,GenomicRanges,GenomicFeatures,edgeR,BiocGenerics,
IRanges, GenomicAlignments, DESeq2, DEXSeq, Gviz, grDevices,
stats, utils, S4Vectors, AnnotationDbi, parallel
R (>= 3.3), GenomicRanges, cowplot, AneuFinderData
R (>= 3.2.2), methods, utils, S4Vectors (>= 0.7.21), IRanges
(>= 2.3.23), GenomicRanges, AnnotationHub
R (>= 3.3), shiny, ConsensusClusterPlus, RColorBrewer, gplots,
plyr, ggplot2, jsonlite, ape, WGCNA
R (>= 3.3), minfi, ChAMPdata (>= 2.6.0), FEM (>= 3.1),DMRcate,
Illumina450ProbeVariants.db,IlluminaHumanMethylationEPICmanifest
R (>= 3.1.2), grid, ComplexHeatmap (>= 1.11.1), GenomicRanges,
IRanges, locfit
utils, BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData
(>= 1.1.4)
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.5.9)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.35.4)
R (>= 3.0.2), grid, stats, graphics, Biobase (>= 2.22.0)
R (>= 2.10), methods, BiocGenerics (>= 0.15.3), S4Vectors (>=
0.9.40), IRanges (>= 2.5.36), GenomeInfoDb (>= 1.1.20),
GenomicRanges (>= 1.25.6), SummarizedExperiment (>= 0.3.1),
Biostrings (>= 2.37.1), Rsamtools (>= 1.21.4)
methods, BiocGenerics, S4Vectors (>= 0.11.6), IRanges (>=
2.7.11), GenomicRanges (>= 1.25.5), Biostrings (>= 2.41.3),
BSgenome, GenomicFeatures, VariantAnnotation (>= 1.19.3),
Rsamtools, GenomicAlignments, rtracklayer (>= 1.33.8),
GenomeInfoDb, SummarizedExperiment
xcms, rsm, CAMERA, grDevices, graphics, stats, utils
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.19.1),
S4Vectors (>= 0.11.19)
R (>= 3.2.2), methods, SummarizedExperiment (>= 0.2.0)
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), mzR (>= 2.7.6), BiocParallel, ProtGenerics (>= 1.5.1)
XGR, igraph, dnet, ggplot2, graphics, stats
R (>= 3.2), DNAcopy, VariantAnnotation (>= 1.14.1)
R (>= 2.14.0), methods, GenomicRanges, Rsamtools, baySeq
R (>= 3.2.2), EBcoexpress, MASS, igraph, pvclust (>= 2.0-0),
RedeR, gRain (>= 1.2-5), gbm (>= 2.1.1), limma, DMwR (>=
0.4.1), matrixStats
R (>= 3.3.1), SummarizedExperiment(>= 1.1.6)
R (>= 3.3), wateRmelon (>= 1.17.1), gdsfmt (>= 1.0.4),
methods, methylumi, minfi, Biobase
magrittr (>= 1.5), ggplot2 (>= 1.0.0), lubridate (>= 1.3.3),
tidyr (>= 0.3.1), cgdsr, RCurl, XML
R (>= 3.1.0), GenomicRanges, methods, Biobase, MASS, graphics,
stats, changepoint
R (>= 3.3), methods, SummarizedExperiment
R, grid, utils, biomaRt, Gviz, psych, ggbio, trackViewer
R (>= 3.0), minfi, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
R (>= 3.3), mvtnorm, igraph, gsl, Biobase, stats
R (>= 3.3.0), GenomicRanges, SummarizedExperiment (>= 1.1.6),
BiocParallel
R (>= 3.3.0), shiny, ggvis, jsonlite, shinyjs
R (>= 3.3), methods, epivizrServer (>= 1.1.1), Biobase
R (>= 2.10), flowCore, fda (>= 2.2.6), cluster, flowWorkspace,
ncdfFlow(>= 2.19.5)
Biobase, gCMAP (>= 1.3.0), methods, R (>= 3.3.0), Rook
R(>= 3.3), randomForest, e1071, ggplot2, effsize, Biostrings,
rjags
R (>= 3.2), DiscriMiner, IRanges, S4Vectors (>= 0.9.25),
GenomicRanges, SummarizedExperiment (>= 1.1.6)
R (>= 3.3), minfi (>= 1.18.2),
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
R (>= 3.3.0), minfi, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19
methods, BiocGenerics (>= 0.15.3), Biobase (>= 2.17.8),
GenomicRanges, SummarizedExperiment (>= 1.1.6), Biostrings,
bumphunter (>= 1.1.9)
R (>= 2.14.0), flowCore(>= 1.37.15), RcppArmadillo, methods,
BH
R (>= 2.3.0), methods, baySeq (>= 1.99.0), S4Vectors,
parallel, GenomicRanges, ShortRead
R (>= 3.3), methods, DBI, RSQLite, seqinr, protViz (>=
0.2.15),
gQTLBase, SummarizedExperiment, GenomicRanges, Homo.sapiens,
dsQTL, geuvPack, MultiAssayExperiment
methods, grDevices, stats, utils, parallel
R (>= 3.2.2), methods, utils, S4Vectors (>= 0.7.21), IRanges
(>= 2.3.23), GenomicRanges, AnnotationHub (>= 2.7.10)
R (>= 3.3), IRanges, GenomicRanges, plyr, dplyr, magrittr
R (>= 3.3), shiny, ConsensusClusterPlus, RColorBrewer, gplots,
plyr, ggplot2, jsonlite, ape, WGCNA, RTCGAToolbox
BiocGenerics, Biobase, graphics, matter, methods, stats,
ProtGenerics
R (>= 3.4), methods, BiocGenerics, S4Vectors (>= 0.14.3),
IRanges, matrixStats
parallel,doParallel,foreach, SummarizedExperiment (>=
1.1.6),minfi (>= 1.22.0)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.37.4)
R (>= 3.3), penalized, Iso, survival, GSEABase, BiocGenerics,
Biobase, annotate, methods, graph,stats
R (>= 2.10), methods, BiocGenerics (>= 0.15.3), S4Vectors (>=
0.13.13), IRanges (>= 2.5.36), GenomeInfoDb (>= 1.11.5),
GenomicRanges (>= 1.27.19), SummarizedExperiment (>= 1.5.3),
Biostrings (>= 2.37.1), Rsamtools (>= 1.21.4)
R (>= 3.4), S4Vectors (>= 0.7.21), GenomicRanges, methods,
BiocGenerics (>= 0.13.8)
R (>= 3.4), methods, DelayedArray (>= 0.2.4), rhdf5
methods, BiocGenerics, S4Vectors (>= 0.11.6), IRanges (>=
2.7.11), GenomicRanges (>= 1.27.1), Biostrings (>= 2.41.3),
BSgenome, GenomicFeatures, VariantAnnotation (>= 1.19.3),
Rsamtools, GenomicAlignments, rtracklayer (>= 1.33.8),
GenomeInfoDb, SummarizedExperiment
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.21.1),
S4Vectors (>= 0.13.17)
R (>= 3.4), GenomicRanges, SummarizedExperiment (>= 1.1.6)
R (>= 3.4.0), methods, SummarizedExperiment (>= 0.2.0)
R (>= 3.4), BiocGenerics, IRanges, GenomicRanges, S4Vectors
R (>= 3.4), SummarizedExperiment(>= 1.1.6), minfi (>= 1.22.0),
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
R (>= 3.3.0), edgeR, gplots, org.Mm.eg.db, GO.db
R (>= 3.3.0), methods, utils, stats, stats4, BiocGenerics (>=
0.21.1)
BiocGenerics (>= 0.22.1), BiocParallel, Biostrings (>=
2.37.1), Rsamtools (>= 1.21.4), GenomicAlignments (>= 1.5.4)
R (>= 3.2), methods, GenomicRanges (>= 1.27.22), Biobase,
DelayedArray (>= 0.1.9)
R (>= 3.0.0), BiocGenerics (>= 0.13.6), GenomicRanges (>=
1.27.6), SummarizedExperiment (>= 1.5.3)
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.11.4), GenomicRanges (>= 1.27.6), SummarizedExperiment
(>= 1.5.3), Rsamtools (>= 1.23.10)
R (>= 3.3.3), SummarizedExperiment(>= 1.1.6)
R (>= 3.3), wateRmelon (>= 1.19.1), gdsfmt (>= 1.0.4),
methods, methylumi, minfi (>= 1.21.0), Biobase
R (>= 3.3), methods, BiocGenerics, GenomicRanges (>= 1.23.7),
SummarizedExperiment (>= 0.1.1), parallel
Biostrings, GenomicRanges, IRanges, Gviz, S4Vectors,
ensembldb, AnnotationFilter
R (>= 3.3.2), SummarizedExperiment, S4Vectors
R (>= 3.4), GenomicRanges, SummarizedExperiment (>= 1.2.0),
BiocParallel
R (>= 3.4), GenomicRanges, InteractionSet,
SummarizedExperiment
BiocGenerics (>= 0.15.10), GenomicRanges (>= 1.23.21),
GenomicFeatures (>= 1.23.18), AnnotationFilter (>= 0.99.7)
R (>= 3.3), metagenomeSeq (>= 1.17.1), methods, data.table,
Biobase, digest
R (>= 2.14.0), methods, Biobase, BiocParallel (>= 1.8.0),
MSnbase (>= 2.1.10)
R (>= 2.7.0), methods, utils, stats4, BiocGenerics (>=
0.23.1), Biobase (>= 1.17.0), IRanges
R (>= 3.2.2), methods, utils, S4Vectors (>= 0.7.21), IRanges
(>= 2.3.23), GenomicRanges, AnnotationHub (>= 2.9.14)
R (>= 3.4.0), reticulate, methods, SummarizedExperiment, knitr
R (>= 3.4.1),GenomicRanges, Biostrings, BSgenome, RcppRoll
R (>= 3.2), methods, grid, IRanges (>= 2.11.16), Biostrings,
GenomicRanges (>= 1.29.14), S4Vectors (>= 0.9.25), VennDiagram
R (>= 3.4.0), SummarizedExperiment, methods, S4Vectors,
BiocParallel, GenomicRanges, IRanges, fdrtool
R (>= 3.4), methods, matrixStats, BiocGenerics, S4Vectors (>=
0.15.3), IRanges (>= 2.11.17)
R (>= 3.4), GenomicRanges, SummarizedExperiment
R (>= 3.1.2), methods, grid, ComplexHeatmap (>= 1.15.2),
GenomicRanges
R(>= 3.4.0), SummarizedExperiment, graph, pathview
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.9.11)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.39.3)
R (>= 3.3), Rsamtools (>= 1.18.2), SummarizedExperiment (>=
1.1.19), GenomicRanges (>= 1.29.14), methods
R (>= 3.1.0), methods, BiocGenerics (>= 0.11.2), GenomicRanges
(>= 1.29.6), SummarizedExperiment, BiocParallel (>= 1.1.0),
Rsamtools (>= 1.17.29), rtracklayer (>= 1.25.3)
R (>= 3.4), methods, DelayedArray (>= 0.3.18), rhdf5
methods, BiocGenerics, S4Vectors (>= 0.11.6), IRanges (>=
2.11.8), GenomicRanges (>= 1.29.6), Biostrings (>= 2.41.3),
BSgenome, GenomicFeatures, VariantAnnotation (>= 1.19.3),
Rsamtools, GenomicAlignments, rtracklayer (>= 1.33.8),
GenomeInfoDb, SummarizedExperiment
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.23.3),
S4Vectors (>= 0.15.5)
R (>= 3.4), GenomicRanges (>= 1.29.6), SummarizedExperiment
(>= 1.1.6)
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), mzR (>= 2.11.11), BiocParallel, ProtGenerics (>=
1.9.1)
R (>= 3.3.0), methods, utils, stats, stats4, BiocGenerics (>=
0.23.3)
BiocGenerics (>= 0.23.3), BiocParallel, Biostrings (>=
2.37.1), Rsamtools (>= 1.21.4), GenomicAlignments (>= 1.5.4)
R (>= 3.2), methods, GenomicRanges (>= 1.29.14), Biobase,
DelayedArray (>= 0.3.20)
R (>= 3.4.1), methods, GenomicRanges, Rsamtools (>= 1.20.4),
ggplot2, plyr, openxlsx
R (>= 3.3), methods, BiocGenerics, GenomicRanges (>= 1.29.14),
SummarizedExperiment (>= 1.7.8), parallel
R (>= 3.4), S4Vectors (>= 0.9.25), IRanges (>= 2.3.23),
GenomeInfoDb, GenomicRanges, foreach, iterators, methods,
parallel, locfit
R (>= 3.1.0), grid, utils, biomaRt, Gviz, psych, ggbio,
trackViewer
R (>= 3.4.1), SummarizedExperiment, S4Vectors
BiocGenerics (>= 0.15.10), GenomicRanges (>= 1.23.21),
GenomicFeatures (>= 1.29.10), AnnotationFilter (>= 1.1.9)
R (>= 3.4), Rsamtools, GenomicRanges, ShortRead
GO.db, org.Rn.eg.db, rtracklayer, R (>= 3.3.1)
R(>= 3.3), methods, stats, graphics, grid, lattice, grDevices,
flowCore
R (>= 3.4), DiscriMiner, SummarizedExperiment, TMB (>= 1.7.6),
RcppEigen
R (>= 3.4.0), R6 (>= 2.0), GenomicRanges, BiocParallel
R (>= 3.2), Biobase, rcdk, fingerprint, rcellminerData (>=
2.0.0)
R (>= 3.4), Biobase, ggplot2, SingleCellExperiment,
SummarizedExperiment
R (>= 3.4), BiocParallel, SingleCellExperiment
R (>= 3.4), GenomicRanges (>= 1.26.4), VariantAnnotation(>=
1.20.3)
R (>= 3.4), scater, SingleCellExperiment
R (>= 2.14.0), methods, Biobase, BiocParallel (>= 1.8.0),
MSnbase (>= 2.3.11)
R (>= 3.5.0), reticulate, methods, SummarizedExperiment,
knitr, HDF5Array
R (>= 3.4.1),GenomicRanges, Biostrings, BSgenome, RcppRoll,
parallel
R (>= 3.5), GenomicRanges, IRanges, S4Vectors
R (>= 3.4), methods, stats4, matrixStats, BiocGenerics (>=
0.25.1), S4Vectors (>= 0.17.43), IRanges (>= 2.11.17),
BiocParallel
R (>= 3.5), BiocParallel, SingleCellExperiment
utils, BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData
(>= 1.9.1)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.41.4)
R (>= 3.4), methods, DelayedArray (>= 0.5.32), rhdf5
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.25.3),
S4Vectors (>= 0.18.2)
R (>= 3.5), ggplot2, stats, grDevices, utils, pathview,
gridExtra
R (>= 3.1), methods, BiocGenerics (>= 0.7.1), Biobase (>=
2.15.2), mzR (>= 2.13.6), BiocParallel, ProtGenerics (>= 1.9.1)
Biobase, stats, lattice, impute, AnnotationHub, ExperimentHub,
R (>= 3.5.0)
IRanges (>= 2.13.15), GenomicRanges (>= 1.31.10), Rsamtools
(>= 1.31.2), SummarizedExperiment, methods
R (>= 3.5), tidyr, SummarizedExperiment, S4Vectors,
BiocGenerics, methods, UpSetR, rlang, stringr, utils,
BiocParallel, ggplot2, mclust, dplyr
R (>= 3.2), methods, GenomicRanges (>= 1.31.17), Biobase,
DelayedArray (>= 0.3.20)
R (>= 3.5), dplyr, TxDb.Hsapiens.UCSC.hg19.knownGene,
org.Hs.eg.db
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.15.2), GenomicRanges (>= 1.31.8), SummarizedExperiment
(>= 1.9.9), Rsamtools (>= 1.31.2)
R (>= 3.3), wateRmelon (>= 1.19.1), gdsfmt (>= 1.0.4),
methods, minfi (>= 1.21.0), Biobase, methylumi
R (>= 3.3), methods, BiocGenerics, GenomicRanges (>= 1.29.14),
SummarizedExperiment (>= 1.9.18), parallel
R (>= 3.4.2), SingleCellExperiment, SummarizedExperiment
R (>= 3.4.0), grid, utils, biomaRt, Gviz, psych
R (>= 3.5), GenomicRanges, SummarizedExperiment, BiocParallel
BiocGenerics (>= 0.15.10), GenomicRanges (>= 1.31.18),
GenomicFeatures (>= 1.29.10), AnnotationFilter (>= 1.1.9)
R(>= 3.4), stats, graphics, e1071, Biostrings, rstan, ranger,
parallel, foreach, doParallel
R (>= 3.5), igraph (>= 1.0.1), AnnotationHub(>= 2.6.5),
MultiAssayExperiment(>= 1.4.9), SummarizedExperiment(>= 1.8.1)
R (>= 3.5), SummarizedExperiment, SingleCellExperiment
R (>= 3.5.0), GenomicRanges, VariantAnnotation, rtracklayer,
BrowserViz (>= 2.0)
R (>= 3.4), DiscriMiner, SummarizedExperiment
R (>= 2.14.0), flowCore(>= 1.45.11), RcppArmadillo, methods,
BH
R (>= 3.5), methods, BiocGenerics, IRanges (>= 2.12.0),
GenomicRanges (>= 1.28.4)
R (>= 3.3), methods, GenomicRanges (>= 1.31.8)
R (>= 3.5), Biobase, ggplot2, SingleCellExperiment,
SummarizedExperiment
R (>= 3.5), GenomicRanges (>= 1.26.4), VariantAnnotation(>=
1.20.3)
R (>= 3.0.0), ggplot2, limma, foreach, scales, Biobase,
methods
R (>= 2.14.0), methods, Biobase, BiocParallel (>= 1.8.0),
MSnbase (>= 2.5.10)
R (>= 3.5), GenomicRanges, cowplot, AneuFinderData
R (>= 3.5), SingleCellExperiment, KernSmooth, ggplot2
R (>= 3.5.0), methods, BiocGenerics, S4Vectors, IRanges,
XVector
BiocGenerics, BiocParallel, EBImage, graphics, methods,
S4Vectors, stats, ProtGenerics
R (>= 3.5.1),GenomicRanges, Biostrings, BSgenome, RcppRoll,
parallel
R (>= 3.5), foreach, parallel, doParallel
R (>= 3.4), methods, stats4, matrixStats, BiocGenerics (>=
0.27.1), S4Vectors (>= 0.19.15), IRanges (>= 2.11.17),
BiocParallel
utils, BiocGenerics (>= 0.15.10), S4Vectors, AnnotationHubData
(>= 1.11.6)
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.13.4)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.43.1)
R (>= 3.5), utils, curl, rhdf5, R6, grid
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.25.3),
S4Vectors (>= 0.19.11)
R (>= 3.5.0), SummarizedExperiment (>= 1.3.81)
R (>= 3.5), BiocParallel, GenomicFeatures,
SummarizedExperiment, data.table, methods
R (>= 3.5.0), doParallel, foreach, parallel, iterators,
data.table, stringr, survival, arm, MASS, stats, utils, methods
R (>= 3.5), tidyr, SummarizedExperiment, S4Vectors,
BiocGenerics, methods, UpSetR, rlang, stringr, utils,
BiocParallel, ggplot2, mclust, dplyr, digest, sessioninfo,
crayon, tibble
R (>= 3.3), dplyr, TxDb.Hsapiens.UCSC.hg19.knownGene,
org.Hs.eg.db
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.15.2), GenomicRanges (>= 1.31.8), SummarizedExperiment
(>= 1.9.9), Rsamtools (>= 1.33.6)
R (>= 2.10), flowCore, cluster, flowWorkspace, ncdfFlow(>=
2.19.5)
R (>= 3.5), SingleCellExperiment, ggplot2, BiocParallel
R (>= 2.14.0), methods, Biobase, BiocParallel (>= 1.8.0),
MSnbase (>= 2.7.8)
R (>= 3.5.0), methods, BiocGenerics, S4Vectors (>= 0.21.13),
IRanges, XVector (>= 0.23.2)
R (>= 3.6.0), methods, S4Vectors, MultiAssayExperiment,
BiocParallel
R (>= 3.6), foreach, parallel, doParallel
R (>= 3.6), parallel, SummarizedExperiment, knitr, KernSmooth
R (>= 3.4), methods, stats4, matrixStats, BiocGenerics (>=
0.27.1), S4Vectors (>= 0.21.7), IRanges (>= 2.17.3),
BiocParallel
methods, BiocGenerics (>= 0.15.10), AnnotationHub (>= 2.15.9),
BiocFileCache (>= 1.5.1)
R (>= 3.5.0), methods, utils, GenomicRanges, Biostrings,
BSgenome, data.table
R (>= 3.1.0), methods, utils, stats, BiocGenerics (>= 0.25.3),
S4Vectors (>= 0.21.9)
R (>= 3.5), ggplot2, stats, grDevices, utils, gridExtra
R (>= 3.5.1), methods, BiocGenerics, S4Vectors, IRanges,
Biostrings
R (>= 3.4), BiocParallel, GenomicFeatures,
SummarizedExperiment, data.table, methods
stats, ggplot2, ggrepel, reshape2, lattice, grDevices, cowplot
R (>= 3.6), S4Vectors, IRanges, Biostrings
R (>= 2.8.0), methods, BiocGenerics (>= 0.15.3), GenomeInfoDb
(>= 1.15.2), GenomicRanges (>= 1.31.8), SummarizedExperiment
(>= 1.9.9), Rsamtools (>= 1.99.0)
R (>= 3.6), SummarizedExperiment, MultiAssayExperiment
R (>= 3.5.0), Rsamtools, GenomicFeatures (>= 1.14.5),
rtracklayer, GenomicAlignments
R (>= 3.5.0), GenomicRanges, VariantAnnotation,
GenomicAlignments, rtracklayer, BrowserViz (>= 2.5.14)
BiocGenerics, ggplot2, tibble (>= 1.3.1)
R (>= 3.6),SummarizedExperiment, methods, Rcpp
R (>= 3.6), SingleCellExperiment, ggplot2
magrittr, deSolve, dplyr, tibble, colorspace, patchwork,
latex2exp, tidyr
plyr, dplyr, ggplot2, Rsolnp, zoo, graphics
plyr, dplyr, ggplot2, Rsolnp, zoo, graphics,
Rcpp (>= 0.11.1), splines, MASS, methods
missForest, e1071, WGCNA, ComICS, pheatmap, doParallel,
quantmod, preprocessCore, pcaMethods, foreach, DeconRNASeq
missForest, e1071, WGCNA, ComICS, pheatmap, doParallel,
quantmod, preprocessCore, pcaMethods, foreach, DeconRNASeq,
nnls
missForest, e1071, ComICS, pheatmap, doParallel, utils,
quantmod, preprocessCore, pcaMethods, foreach, nnls, ranger
missForest, e1071, WGCNA, ComICS, pheatmap, doParallel,
quantmod, preprocessCore, pcaMethods, foreach, DeconRNASeq,
nnls, ranger
missForest, e1071, WGCNA, ComICS, pheatmap, doParallel,
quantmod, preprocessCore, pcaMethods, foreach, nnls, ranger
Rcpp, Matrix, Rdpack, stats, doParallel, foreach, parallel
Rcpp, Matrix, Rdpack, stats, doParallel, foreach, parallel,
utils
stats, parallel, foreach, ggplot2, dplyr
graphics, grDevices, mathjaxr, stats, scales, zoo
purrr, dplyr, magrittr, assertthat, mvtnorm, Rcpp
dplyr, magrittr, qvalue, doParallel, tidyr, modelr, foreach,
rlang, utils
car, forecast, zoo, regclass, olsrr, stats, lmtest, graphics,
tseries, nlme, ggplot2, gridExtra, utils, rlang, xts, writexl,
mFilter
car, forecast, zoo, regclass, olsrr, stats, lmtest, graphics,
tseries, nlme, ggplot2, gridExtra, utils, rlang, xts, writexl,
mFilter,nortest, goftest, cli
methods, Matrix, plyr, rgdal, sp, spdep, spacetime,
matrixcalc, maxLik
mixexp, plgp, devtools, dplyr, tibble, tidyr, Matrix
grDevices, graphics, methods, stats, utils, plotrix, raster,
sp, RandomFields, coda
grDevices, graphics, methods, stats, utils, plotrix, raster,
sp, RandomFields, coda, unmarked (>= 0.12.2), mvtnorm, spdep
grDevices, graphics, methods, stats, utils, plotrix, raster,
sp, fields, coda, unmarked (>= 0.12.2), mvtnorm, spdep
methods, stats, graphics, lattice, MASS, Matrix, nlme, stats4,
unmarked, VGAM
methods, stats, graphics, lattice, MASS, Matrix, nlme, stats4,
unmarked, VGAM, xtable
methods, stats, graphics, lattice, MASS, Matrix, nlme, stats4,
survival, unmarked, VGAM, xtable
MASS, tseries, nortest, ggplot2, graphics, stats
MASS, tseries, nortest, ggplot2, graphics, psych, stats
MASS, tseries, nortest, ggplot2, graphics, psych, stats, meta,
stringr
stats, utils, R6, SuperLearner, ggplot2, future.apply,
progressr, Rsolnp
RCurl, assertthat, digest, httr, jsonlite (>= 0.9.8), plyr,
sp, stringr (>= 1.0.0), wellknown
RCurl, assertthat, data.table, digest, httr, jsonlite (>=
0.9.8), sp, stringr (>= 1.0.0), wellknown
assertthat, data.table, digest, httr, jsonlite (>= 0.9.8), sp,
stringr (>= 1.0.0), wellknown
cubature (>= 1.0), lattice (>= 0.20), methods
curl, data.table, dplyr, methods, rappdirs, rvest, stringr,
utils
markdown, graphics, grDevices, RColorBrewer, stats, R6 (>=
2.5.1), scales (>= 1.1.1), shinyjs (>= 2.0.0), ggplot2 (>=
3.3.5), shinyscreenshot (>= 0.1.0)
markdown, graphics, grDevices, RColorBrewer, stats, R6 (>=
2.5.1), scales (>= 1.2.1), shinyjs (>= 2.1.0), ggplot2 (>=
3.4.0), shinyscreenshot (>= 0.2.0)
backports, clipr, curl, dplyr (>= 0.7.0), xml2 (>= 1.0.0),
knitr (>= 1.0.0), readr, rvest (>= 0.3.2), tibble
backports, crayon (>= 1.3.0), data.table (>= 1.9.0), dplyr (>=
0.7.0), ggplot2, hms, knitr (>= 1.0.0), microbenchmark, rlang
(>= 0.3.1), tidyr (>= 0.7.0)
backports, crayon (>= 1.3.0), data.table (>= 1.9.0), dplyr (>=
0.7.0), ggplot2, hms, knitr (>= 1.0.0), microbenchmark, rlang
(>= 0.3.1), scales, tidyr (>= 0.7.0)
backports, clean (>= 1.1.0), crayon (>= 1.3.0), data.table (>=
1.9.0), dplyr (>= 0.7.0), ggplot2, knitr (>= 1.0.0),
microbenchmark, pillar, rlang (>= 0.3.1), tidyr (>= 0.7.0)
backports, cleaner, crayon (>= 1.3.0), data.table (>= 1.9.0),
dplyr (>= 0.7.0), ggplot2, knitr (>= 1.0.0), microbenchmark,
pillar, rlang (>= 0.3.1), tidyr (>= 1.0.0)
backports, cleaner, crayon (>= 1.3.0), data.table (>= 1.9.0),
dplyr (>= 0.7.0), ggplot2, knitr (>= 1.0.0), microbenchmark,
pillar, R6, rlang (>= 0.3.1), tidyr (>= 1.0.0), vctrs (>=
0.2.4)
ggplot2, MCPAN, multcomp, nparcomp, SimComp
cellranger, purrr, stats, data.table, lazyeval, utils
Rcpp (>= 1.0.7), lwgeom, FD, parallel, units, stats, graphics,
utils, methods
haven, survey, magrittr, tidyverse, dplyr, ggplot2,
data.table, ggpubr, stringr
survey, magrittr, dplyr, ggplot2, data.table, ggpubr, stringr,
gee
ggpubr, checkmate, knitr, ggplot2, colorspace, dplyr, mgcv,
scales, tidyr
foreach, parallel, doParallel, ggplot2, gridExtra
foreach, parallel, doParallel, ggplot2, gridExtra, methods
data.table (>= 1.9.4), lubridate (>= 1.3.3), stringr (>=
0.6.2), plyr (>= 1.8.1), sirad, methods, utils
data.table (>= 1.9.4), lubridate (>= 1.3.3), stringr (>=
0.6.2), plyr (>= 1.8.1), sirad, methods, utils, RSQLite
sp, raster, rgdal, methods, yesno, maptools
sp, raster, rgdal, methods, maptools, withr
openair, dplyr, loa, ggplot2, strucchange, segmented, mgcv,
tidyr, lubridate, purrr, ggtext, stats
mvtnorm, tmvtnorm, msm, numDeriv, utils, graphics, stats
Rcpp, mvtnorm (>= 1.0-10), stats, methods, ggplot2
aod, dplyr, dynlm, lmtest, msm, stringr, zoo
stats, grDevices, graphics, splines, np, Matrix, Hmisc, MASS,
moments, nor1mix, spatstat
stats, grDevices, graphics, splines, np, Matrix, Hmisc, MASS,
moments, nor1mix, spatstat.geom, spatstat (>= 2.0-0)
stats, grDevices, graphics, splines, np, Matrix, Hmisc, MASS,
moments, nor1mix, spatstat.geom
stats, grDevices, graphics, splines, np, Matrix, Hmisc, MASS,
moments
Formula, parallel, data.table (>= 1.9.4)
bannerCommenter (>= 1.0.0), clipr (>= 0.4.0)
bannerCommenter (>= 1.0.0), clipr (>= 0.4.0), rstudioapi,
shiny
lme4, car (>= 2.0-24), plyr, magrittr, dplyr
lme4, car (>= 2.0-24), plyr, magrittr, dplyr, emmeans
Matrix, stats4, gmm, sandwich,mvtnorm, tmvtnorm, numDeriv,
utils, graphics, stats, MASS, lmec, mnormt
Matrix, stats4, gmm, sandwich, mvtnorm, tmvtnorm, numDeriv,
utils, graphics, stats, MASS, lmec, mnormt
Matrix, stats4, gmm, sandwich, mvtnorm, tmvtnorm, numDeriv,
utils, graphics, stats, MASS, lmec, mnormt, MomTrunc, TTmoment
Matrix, stats4, gmm, sandwich, mvtnorm, tmvtnorm, numDeriv,
utils, graphics, stats, MASS, lmec, mnormt, MomTrunc, TTmoment,
relliptical
Matrix, stats4, gmm, sandwich, mvtnorm, tmvtnorm, numDeriv,
utils, graphics, stats, MASS, lmec, mnormt, MomTrunc,
TTmoment,expm, relliptical
numDeriv, stats, MASS, mnormt, tcltk, expm, relliptical,
TruncatedNormal, LaplacesDemon
doParallel, ggplot2, foreach, methods, parallel, plyr,
quadprog, zoo
AGHmatrix, cowplot, crayon, data.table, ellipse, factoextra,
ggplot2, Matrix, methods, scattermore, stats, superheat, utils
Rcpp (>= 1.0.7), freqdom, stats, graphics
graphics, forecast, Rcpp, Rdpack, seasonal, stats, stlplus,
stR, timeSeries, TSA, tseries, utils, xts
Rcpp (>= 1.0.7), methods, stats, utils, deSolve
Evapotranspiration (>= 1.14), ncdf4, R.utils, raster, chron,
maptools, sp, zoo, methods
Evapotranspiration (>= 1.14), ncdf4, utils, raster, chron,
maptools, sp, zoo, methods, xts, stats
zoo, cosinor, cosinor2, dplyr, minpack.lm
accelerometry, dplyr, ineq, survival, stats, tidyr
dplyr, stringr, lubridate, accelerometry, DBI, RSQLite,
lazyeval, methods, utils, tibble
ggplot2, dplyr, scales, tibble, lubridate, data.table,
magrittr, methods, RColorBrewer, tidyr
BSgenome, BSgenome.Hsapiens.UCSC.hg19, Biostrings,
GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, plyr
BSgenome, BSgenome.Hsapiens.UCSC.hg19, Biostrings,
GenomeInfoDb, GenomicRanges, IRanges, S4Vectors
BSgenome, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Mmusculus.UCSC.mm9,
BSgenome.Mmusculus.UCSC.mm10, Biostrings, GenomeInfoDb,
GenomicRanges, IRanges, S4Vectors
imager (>= 0.40.1), fftwtools (>= 0.9-7), plotrix (>= 3.2.3),
tools, grid, grDevices, graphics
shiny, caTools, mclust, methods, ggplot2, grid
Rcpp, shiny, pracma, methods, ggplot2, DataVisualizations
Rcpp, shiny, pracma, methods, DataVisualizations
lubridate (>= 1.5), parallel (>= 3.0), data.table (>= 1.9),
manipulate (>= 1.0), snow (>= 0.4)
lubridate (>= 1.5), parallel (>= 3.0), data.table (>= 1.9),
manipulate (>= 1.0), shiny (>= 1.0)
devtools, plyr, dplyr, reshape2, writexl, ggvis, lubridate,
plotly, ggplot2, imager, tidyr, circular, scales, grDevices,
zoo, grid
devtools, plyr, dplyr, reshape2, writexl, ggvis, lubridate,
plotly, ggplot2, imager, tidyr, circular, scales, grDevices,
zoo, grid, purrr, colorspace, httpuv
dplyr, writexl, ggvis, lubridate, plotly, ggplot2, tidyr,
circular, scales, grDevices, zoo, grid, data.table
dplyr, purrr, magrittr, tidyr, ggplot2, ggthemes, stringr,
tidyselect
dplyr, purrr, tidyr, ggplot2, ggthemes, stringr, tidyselect,
flextable
stats, utils, methods, data.table, tibble, NCmisc
ggplot2, nortest, ScottKnott, lme4, crayon, lmtest, stringr,
Hmisc, emmeans, ARTool, multcomp, ggrepel, reshape2, MASS,
cowplot, multcompView, RColorBrewer, drc, dunn.test
ggplot2, nortest, lme4, crayon, lmtest, emmeans, multcomp,
ggrepel, MASS, cowplot, multcompView, RColorBrewer, drc,
dunn.test
ggplot2, nortest, lme4, crayon, lmtest, emmeans, multcomp,
ggrepel, MASS, cowplot, multcompView, RColorBrewer, drc,
dunn.test, gtools
ggplot2, nortest, lme4, crayon, lmtest, emmeans, multcomp,
ggrepel, MASS, cowplot, multcompView, RColorBrewer, drc,
dunn.test, gtools, gridExtra
knitr, ggplot2, nortest, lme4, crayon, lmtest, emmeans,
multcomp, ggrepel, MASS, cowplot, multcompView, RColorBrewer,
drc, dunn.test, gtools, gridExtra
drc, ggplot2, car, crayon, boot, minpack.lm, dplyr,
rcompanion, broom
drc, ggplot2, car, crayon, boot, minpack.lm, dplyr,
rcompanion, broom, egg
drc, ggplot2, boot, minpack.lm, dplyr, rcompanion, broom, egg
ggplot2, gridExtra, xlsx, readxl, ggrepel, stats, nortest,
lmtest, crayon, utils
dplyr, dygraphs, leaflet, lubridate, magrittr, MazamaCoreUtils
(>= 0.4.10), MazamaTimeSeries (>= 0.2.1), readr, rlang (>=
0.1.2), stringr, tidyselect, xts
countrycode, cowplot, dplyr (>= 1.0.0), dygraphs, geodist,
geosphere, GGally, ggmap, ggplot2, gridExtra, httpcode, httr,
jsonlite, leaflet, lubridate, magrittr, MazamaCoreUtils (>=
0.4.2), MazamaLocationUtils (>= 0.1.6), MazamaSpatialUtils (>=
0.6.3), openair, PWFSLSmoke (>= 1.2.100), readr, RColorBrewer,
rlang, scales, seismicRoll, sp, stringr, tibble, tidyr,
tidyselect, worldmet (>= 0.9.2), xts, zoo
countrycode, cowplot, dplyr (>= 1.0.0), dygraphs, geodist,
geosphere, GGally, ggmap, ggplot2, gridExtra, httpcode, httr,
jsonlite, leaflet, lubridate, magrittr, MazamaCoreUtils (>=
0.4.6), MazamaLocationUtils (>= 0.1.13), MazamaSpatialUtils (>=
0.7.3), openair, PWFSLSmoke (>= 1.2.111), readr, RColorBrewer,
rlang, scales, seismicRoll, sp, stringr, tibble, tidyr,
tidyselect, worldmet (>= 0.9.2), xts, zoo
Rcpp (>= 0.11.6), seqinr, ggplot2, reshape2
Rcpp (>= 0.11.6), seqinr, ggplot2, reshape2, tools, utils
vegan (>= 2.5-6), BiodiversityR (>= 2.12-3), adegenet
directlabels (>= 1.1), gdata (>= 2.6.0), ggplot2 (>= 0.8.9),
pedigree (>= 1.3.1), Rcpp (>= 0.9.4), reshape, dplyr, magrittr
directlabels (>= 1.1), ggplot2 (>= 0.8.9), pedigree (>=
1.3.1), Rcpp (>= 0.9.4), methods (>= 4.1.3), reshape, dplyr,
magrittr, tibble (>= 3.1.7),
directlabels (>= 1.1), ggplot2 (>= 0.8.9), pedigree (>=
1.3.1), Rcpp (>= 0.9.4), methods (>= 3.6.2), reshape, dplyr,
magrittr, tibble (>= 3.1.7),
foreign, utils, grDevices, graphics, methods, stats
foreign, utils, grDevices, graphics, methods, stats, rlang
methods, RJSONIO, RCurl, stringr, sp, rgdal, foreign
biogram, devtools, pbapply, ranger, shiny, stringi
ggrepel, pheatmap, lookup, plyr, data.table, rafalib,
RColorBrewer, methods, graphics
svd(>= 0.3.3-2), parallel(>= 3.2.1), grDevices, graphics,
stats, utils
glmnet (>= 1.4), selectiveInference (>= 1.0.0)
glmnet (>= 1.4), selectiveInference (>= 1.0.0), mgcv (>= 1.0)
RSQLite, DBI, zip, methods, dbplyr, cli, pillar, Rcpp
RSQLite, DBI, zip, methods, dbplyr, tidyselect, cli, pillar
RSQLite, DBI, zip, methods, dbplyr, tidyselect, cli, rlang,
pillar
RSQLite, DBI, zip, methods, dbplyr, tidyselect, cli, rlang,
pillar, hms
brms, circular, overlap, graphics, stats, loo, ggplot2,
gridExtra, activityGCMM
limma, ggplot2, DT, ggpubr, pheatmap, utils, methods, Biobase,
stats
ggplot2, DT, ggpubr, pheatmap, utils, methods, stats
ggplot2, DT, ggpubr, pheatmap, utils, methods, Biobase, stats
ggplot2, DT, ggpubr, pheatmap, utils, methods, Biobase, stats,
xml2, httr, curl
tseries, EnvStats, fitdistrplus, actuar, stats
stats, graphics, grDevices, Rcpp (>= 0.12.3), sdols, mvtnorm,
mcclust
stats, graphics, grDevices, Rcpp (>= 0.12.3), salso, mvtnorm,
mcclust, GGally, bayesplot, Rdpack
rjson, plyr, assertthat, httr, leafletR (>= 0.1-1)
shapes, rgl, archetypes, nnls, depth, FNN, ICGE, cluster
shapes, rgl, archetypes, nnls, depth, FNN, ICGE, cluster,
biclust
methods, DT, shiny, shinydashboardPlus, shinydashboard, Rcpp
(>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1),
rstantools (>= 2.1.1), dplyr, tibble, BayesFactor, broom, car,
highcharter, moments, reshape, nortest, purrr, shinycssloaders,
stringr, waiter, htmltools
foreach, parallel, doParallel, utils, stringr
CORElearn, MASS, plyr, reshape2, lattice, ellipse
utils, stats, methods, graphics, grDevices
stats, utils, graphics, grDevices, Bchron
stats, utils, graphics, grDevices, hdrcde, shiny, shinythemes
stats, utils, graphics, grDevices, hdrcde, shiny, shinythemes,
DT, dplyr, readr, ggplot2, ggthemes
stats, utils, graphics, grDevices, shiny, shinythemes, DT,
readr, ggthemes, toOrdinal, ggplot2, ggalt
stats, utils, graphics, grDevices, shiny, shinythemes, DT,
readr, ggthemes, toOrdinal, ggplot2, ggalt, reshape2, dplyr,
digest, gplots, magrittr, tibble
stats, utils, graphics, grDevices, shiny, shinythemes, DT,
readr, ggthemes, toOrdinal, ggplot2, ggalt, reshape2, dplyr,
digest, gplots, magrittr, tibble, ggraph, gtools
stats, utils, graphics, grDevices, shiny, readr, toOrdinal,
ggplot2, ggalt, reshape2, dplyr, digest, gplots, magrittr,
ggraph, gtools
PerformanceAnalytics, quantmod, RiskPortfolios, xts, zoo,
NMOF, riskParityPortfolio
VineCopula, mvtnorm, bootstrap, stats4, boot, numDeriv,
mvQuad, ggplot2, methods, Rdpack, knitr,grid
VineCopula, mvtnorm, boot, numDeriv, mvQuad, ggplot2, Rdpack
VineCopula, mvtnorm, boot, numDeriv, mvQuad, ggplot2,
Rdpack,knitr,qpdf
KernSmooth, decon, kedd, locfit, ks, kerdiest, sm, ICV, OSCV
data.table, plotly, shiny, openair, lubridate,
shinycssloaders, DT
lmtest, car, MASS, broom, rowr, ROCR, dplyr, BaylorEdPsych,
aod, gtools
cluster ,pamr ,siggenes ,annotate ,fgsea ,org.Hs.eg.db
,RColorBrewer ,ConsensusClusterPlus ,Rtsne ,clusterProfiler
,msigdbr
tableone, pROC, randomForest, ggplot2, knitr
tableone, pROC, randomForest, ggplot2, rpart, knitr
tableone, pROC, randomForest, ggplot2, knitr, Hmisc, car,
coxed, dplyr, ordinal, survival, tidyr, plotly, magrittr,
randomForestSRC, rlang, survAUC, survminer
pracma, readxl, ggplot2, stringr, tidyr, ggthemes, reshape2
utils, httr (>= 1.3), openssl, jsonlite, R6, rappdirs
utils, httr (>= 1.3), openssl, jsonlite, jose, R6, rappdirs
AzureAuth (>= 1.2.0), AzureRMR, jsonlite, httr (>= 1.3),
utils, AzureAuth, AzureRMR (>= 2.0.0), AzureGraph, openssl,
httr, R6
utils, AzureRMR (>= 2.0.0), AzureGraph, openssl, httr, R6
utils, AzureRMR (>= 2.0.0), AzureGraph (>= 1.1.0), openssl,
httr, R6
utils, AzureRMR (>= 2.0.0), AzureGraph (>= 1.1.0), openssl,
httr, R6, processx
utils, AzureRMR (>= 2.3.3), curl, openssl, jsonlite, httr,
uuid, vctrs (>= 0.3.0)
AzureAuth, utils, httr (>= 1.3), jsonlite, openssl, R6
AzureAuth (>= 1.0.1), utils, httr (>= 1.3), jsonlite, openssl,
R6
AzureAuth (>= 1.0.1), utils, httr (>= 1.3), jsonlite, openssl,
curl, R6
utils, R6, httr, jsonlite, openssl, jose, AzureRMR,
AzureGraph, AzureAuth (>= 1.0.1)
rlang, methods, utils, httr (>= 1.3), jsonlite, R6, openssl,
AzureAuth, AzureRMR (>= 2.0.0), tibble, dplyr, tidyselect (>=
0.2.4), DBI (>= 1.0.0)
RCurl, uuid, codetools, base64enc, df2json, jsonlite, rjson
jsonlite(>= 0.9.16), curl(>= 0.8), foreign, codetools,
base64enc, miniCRAN, uuid
utils, AzureRMR (>= 2.0.0), AzureStor (>= 3.0.0), openssl,
httr
AzureAuth, utils, httr (>= 1.3), openssl, jsonlite, R6
AzureAuth, utils, httr (>= 1.3), jsonlite, R6, uuid
AzureAuth (>= 1.0.1), utils, httr (>= 1.3), jsonlite, R6, uuid
AzureAuth (>= 1.2.1), utils, httr (>= 1.3), jsonlite, R6, uuid
AzureGraph (>= 1.0.4), AzureAuth (>= 1.2.1), utils, parallel,
httr (>= 1.3), jsonlite, R6, uuid
AzureGraph (>= 1.2.0), AzureAuth (>= 1.2.1), utils, parallel,
httr (>= 1.3), jsonlite, R6, uuid
utils, R6, httr, mime, openssl, xml2, AzureRMR
utils, parallel, R6, httr, mime, openssl, xml2, AzureRMR
utils, R6, httr, mime, openssl, xml2, AzureRMR (>= 2.3.0)
utils, R6, httr (>= 1.4.0), mime, openssl, xml2, AzureRMR (>=
2.3.0)
utils, R6, httr (>= 1.4.0), mime, openssl, xml2, vctrs,
AzureRMR (>= 2.3.0)
utils, AzureRMR (>= 2.0.0), AzureStor (>= 3.0.0), jsonlite,
openssl, httr, uuid, vctrs (>= 0.3.0)
R6, AzureRMR (>= 2.1.2), jsonlite, parallel
seqinr, Rpdb, scales, stats, base, dplyr, Biostrings, readr
seqinr, Rpdb, scales, stats, base, dplyr, Biostrings, readr,
progress
stats, graphics, lattice, grDevices, Rcpp, tcltk, rootSolve,
qrng, mvtnorm, gtools, parallel, label.switching, methods,
coda, future.apply, future, loo (>= 2.0.0), RColorBrewer,
bridgesampling
stats, graphics, lattice, grDevices, Rcpp, tcltk, rootSolve,
qrng, mvtnorm, gtools, parallel, label.switching, methods,
coda, future.apply, loo (>= 2.0.0), RColorBrewer,
bridgesampling
stats, graphics, lattice, grDevices, Rcpp, tcltk, rootSolve,
qrng, mvtnorm, gtools, parallel, label.switching, methods,
coda, future.apply, loo (>= 2.1.0), RColorBrewer,
bridgesampling, scales
stats, stats4, graphics, lattice, grDevices, Rcpp, tcltk,
qrng, mvtnorm, gtools, parallel, label.switching, methods,
coda, future.apply, loo (>= 2.1.0), RColorBrewer,
bridgesampling, scales, numDeriv
stats, stats4, graphics, lattice, grDevices, Rcpp, tcltk,
qrng, mvtnorm, gtools, parallel, label.switching, methods,
coda, future.apply, loo (>= 2.4.1), RColorBrewer,
bridgesampling, scales, numDeriv
dplyr, httr, lubridate, RCurl, readr, rvest, utils, XML, xml2,
zoo
dplyr, httr, lubridate, RCurl, readr, rvest, utils, XML, xml2
DPpackage, igraph, mclust, pscl, tmvtnorm, network
DPpackage, igraph, mclust, pscl, tmvtnorm, network, coda
DPpackage, igraph, mclust, pscl, tmvtnorm, network, coda,
graphics, methods, stats, utils
DPpackage, igraph, mclust, network, GGally, truncnorm,
graphics, stats, flexmix, grDevices,foreach, doParallel, coda,
pscl,methods,
magrittr, dplyr, data.table, downloader, sf, XML, httr, rgdal,
janitor, rio, jsonlite, stringr, utils, memoise, stringi,
shiny, miniUI, rstudioapi
magrittr, dplyr, data.table, downloader, sf, XML, httr, rgdal,
janitor, rio, jsonlite, stringr, utils, memoise, stringi,
shiny, miniUI, rstudioapi, checkmate
magrittr, dplyr, data.table, downloader, sf, XML, httr, rgdal,
janitor, rio, jsonlite, stringr, utils, memoise, stringi,
shiny, miniUI, rstudioapi, checkmate, glue
igraph, Biostrings, RWeka, randomForest, rgl, rmcfs,
grDevices, graphics, stats
igraph, Biostrings, RWeka, randomForest, rmcfs, grDevices,
graphics, stats, rJava
graphics, nls2, raster, spatstat, stats, utils, vegan
graphics, hypervolume, nls2, raster, spatstat, stats, utils,
vegan
geometry, graphics, hypervolume, nls2, raster, spatstat,
stats, utils, vegan
geometry, graphics, hypervolume, nls2, raster, stats, utils,
vegan
ape, geometry, graphics, hypervolume, MASS, nls2, raster,
stats, utils, vegan
ape, geometry, graphics, hypervolume, MASS, nls2, parallel,
raster, stats, utils, vegan
ape, geometry, graphics, hypervolume, MASS, methods, nls2,
parallel, raster, stats, utils, vegan
Anthropometry, plyr, dplyr, ggplot2, ggthemes, grid,
hrbrthemes, httr, lubridate, magrittr, plotly, purrr, reshape2,
rvest, rworldmap, scales, stringi, stringr, tidyr, xml2
Anthropometry, plyr, dplyr, ggplot2, ggthemes, grid,
hrbrthemes, httr, lubridate, magrittr, purrr, reshape2, rvest,
rworldmap, scales, stringi, stringr, tidyr, xml2
Anthropometry, plyr, dplyr, ggplot2, ggthemes, grid,
hrbrthemes, httr, lubridate, magrittr, purrr, reshape2, rvest,
rworldmap, scales, stringi, stringr, tibble, tidyr, xml2
Anthropometry, plyr, dplyr, ggplot2, ggthemes, grid, httr,
lubridate, magrittr, purrr, reshape2, rvest, rworldmap, scales,
stringi, stringr, tibble, tidyr, xml2
DEoptim, aws, grid, ggplot2, reshape2, shiny, methods
DEoptim, wmtsa, grid, ggplot2, reshape2, shiny, methods
parallel, pbapply (>= 1.4-2), psych (>= 1.9.12.31), wdm (>=
0.2.1), stats, utils, methods
parallel, pbapply (>= 1.4-2), psych (>= 1.9.12.31), wdm (>=
0.2.1), stats, utils, methods, bayeslincom (>= 1.1.0)
parallel, pbapply (>= 1.4-2), psych (>= 1.9.12.31), wdm (>=
0.2.1), ggplot2 (>= 3.3.4), stats, utils, methods, bayeslincom
(>= 1.1.0), Rdpack
parallel, pbapply (>= 1.4-2), psych (>= 1.9.12.31), wdm (>=
0.2.1), ggplot2 (>= 3.3.4), stats, utils, methods, bayeslincom
(>= 1.2.0), Rdpack
utils, methods, stats, checkmate (>= 1.8.0)
checkmate (>= 1.8.0), data.table, methods, utils, stats
checkmate (>= 1.8.0), data.table, methods, stats, utils
RcmdrMisc (>= 1.0-1), Rcmdr (>= 2.1-0), car (>= 2.0-21),
rpart, flexclust, clv
graphics, gRbase, grDevices, lattice, methods, mvtnorm, stats,
utils
dplyr, ggplot2, GrassmannOptim, gridExtra, graphics, MASS,
purrr, reshape2, rlang
cli (>= 3.3.0), dplyr, ggplot2, gridExtra, graphics, MASS,
Matrix, purrr, Rdpack, reshape2, rlang, scales
stats, cluster, coda, clValid, knitr, crayon, plyr
stats, cluster, coda, knitr, crayon, plyr
Rcpp (>= 1.0.5), stringr, igraph, readr, grDevices, graphics
Rcpp (>= 1.0.5), stringr, igraph, grDevices, graphics
coda, parallel, foreach, doParallel, MASS, methods, graphics,
stats, utils
coda, parallel, foreach, doParallel, MASS, methods, graphics,
stats, utils, DWreg
dplyr, readr, stringr, utils, shiny (>= 0.13), DT, miniUI (>=
0.1.1), rstudioapi (>= 0.5)
dplyr, readr, stringr, utils, shiny (>= 0.13), DT, htmltools,
miniUI (>= 0.1.1), rstudioapi (>= 0.5)
Rcpp, expm, reshape2, ggplot2, mathjaxr, gridExtra, grid,
ggfortify, parallel, xts, stats, future, forecast, future.apply
Rcpp, reshape2, ggplot2, mathjaxr, gridExtra, grid, ggfortify,
parallel, xts, stats, future, forecast, future.apply, GAS, ks,
lubridate, utils, pbapply
Rcpp, reshape2, ggplot2, mathjaxr, gridExtra, grid, ggfortify,
parallel, xts, stats, future, forecast, future.apply, GAS, ks,
lubridate, utils, pbapply, numDeriv, moments
benthos (>= 1.3-5), readr, purrr, knitr, markdown, jsonlite,
xtable, dplyr (>= 0.7.0), tidyr, ggplot2 (>= 2.0.0)
knitr, markdown, RJSONIO, xtable, plyr, reshape2
knitr, markdown, jsonlite, xtable, plyr, reshape2
testthat (>= 0.9.1), rootSolve, grnn, ggplot2, plotly, urca,
TTR, forecast, TSA, FinTS, fpp, stringi, sqldf, foreign,
lmtest, normtest, zoo, rugarch, colorspace, fracdiff, tseries,
timeDate, htmlwidgets, quadprog, Rcpp, gtable, scales, viridis,
rmarkdown, seasonal, stringr, mFilter, dygraphs
rootSolve, grnn, ggplot2, plotly, urca, forecast, sqldf, zoo,
rmarkdown, foreign, seasonal, stringr, dygraphs, RCurl, shiny
(>= 0.13), miniUI (>= 0.1.1), rstudioapi (>= 0.4), DT
grnn, ggplot2, plotly, urca, forecast, sqldf, zoo, rmarkdown,
foreign, seasonal, stringr, dygraphs, RCurl, shiny (>= 0.13),
miniUI (>= 0.1.1), rstudioapi (>= 0.4), DT, webshot, RMySQL,
DBI
grnn, ggplot2, plotly, urca, forecast, sqldf, zoo, rmarkdown,
foreign, seasonal, stringr, dygraphs, RCurl, shiny (>= 0.13),
miniUI (>= 0.1.1), rstudioapi (>= 0.4), DT, webshot, RMySQL,
DBI, rjson, rvest, xml2, lubridate, htmltools
grnn, ggplot2, plotly, urca, forecast, sqldf, zoo, rmarkdown,
foreign, seasonal, stringr, dygraphs, RCurl, shiny (>= 0.13),
miniUI (>= 0.1.1), rstudioapi (>= 0.4), DT, webshot, RMySQL,
DBI, rjson, httr,rvest, xml2, lubridate, htmltools
grnn, ggplot2, plotly, urca, forecast, zoo, rmarkdown,
foreign, seasonal, stringr, dygraphs, shiny (>= 0.13), miniUI
(>= 0.1.1), rstudioapi (>= 0.4), DT, webshot, RMySQL, DBI,
rjson, rvest, xml2, lubridate, htmltools, httr
grnn, ggplot2, plotly, urca, forecast, zoo, rmarkdown,
foreign, seasonal, stringr, dygraphs, shiny (>= 0.13), miniUI
(>= 0.1.1), rstudioapi (>= 0.4), DT, webshot, RMySQL,
digest,DBI, rjson, rvest, xml2, lubridate, htmltools, httr,
dplyr, sqldf
xml2, rvest, tibble, magrittr, purrr, janitor, progress, pxR
xml2, rvest, tibble, magrittr, purrr, janitor, progress, pxR,
pins
xml2, rvest, tibble, magrittr, purrr, janitor, progress, pxR,
pins, dplyr, tidyRSS
pxweb, jsonlite, xml2, rvest, tibble, magrittr, janitor,
tidyRSS, lifecycle
pxweb, jsonlite, xml2, rvest, tibble, magrittr, janitor,
lifecycle, tidyRSS
stats, MASS, MCMCpack, Matrix, mvtnorm, pracma, lme4
stats, MASS, Matrix, mvtnorm, pracma, lme4
stats, MASS, Matrix, mvtnorm, pracma, lme4, extraDistr
methods, parallel, crochet (>= 2.1.0), bigmemory,
synchronicity, ff, bit
magrittr, dplyr, purrr, tibble, ggplot2, ggthemes, gridExtra,
readr, survival, rlang
magrittr, dplyr, purrr, tibble, ggplot2, ggthemes, gridExtra,
readr, survival, rlang, stringr, tidyr, progress, Brobdingnag
abind, bayesm, coda, doParallel, foreach, GIGrvg, graphics,
knitr, MASS, Matrix, methods, parallel, Rcpp (>= 1.0.3), stats,
stochvol, utils, xts, zoo
abind, bayesm, coda, GIGrvg, graphics, knitr, MASS, Matrix,
methods, parallel, Rcpp (>= 1.0.3), stats, stochvol, utils,
xts, zoo
abind, bayesm, coda, GIGrvg, graphics, knitr, MASS, Matrix,
methods, parallel, Rcpp (>= 1.0.3), rmarkdown, stats, stochvol,
utils, xts, zoo
abind, bayesm, coda, GIGrvg, graphics, knitr, MASS, Matrix,
methods, parallel, Rcpp (>= 1.0.3), RcppParallel, stats,
stochvol (>= 3.0.3), utils, xts, zoo
abind, bayesm, coda, GIGrvg, graphics, knitr, MASS, Matrix,
methods, parallel, Rcpp (>= 1.0.3), RcppParallel, readxl,
stats, stochvol (>= 3.0.3), utils, xts, zoo
prevtoinc, MCMCpack, plotrix, graphics, grDevices, stats,
methods
maptools, rgeos, rgdal, sp, DBI, ape, methods
rgeos, rgdal, sp, DBI, ape, methods, sf, fasterize, raster,
doParallel, parallel, foreach
graphics, grDevices, methods, miceadds (>= 1.8), mitools,
Rcpp, stats, utils, TAM
graphics, grDevices, methods, miceadds, mitools, Rcpp, stats,
utils, TAM
Rcpp (>= 0.11.0), miceadds, mitools, TAM
stats, graphics, utils, methods, grDevices, Rcpp, miceadds,
mitools, TAM
stats, graphics, utils, methods, grDevices, Rcpp, miceadds (>=
1.3), mitools, TAM
graphics, grDevices, methods, miceadds (>= 2.0), mitools,
Rcpp, stats, survey (>= 3.31-2), utils, TAM (>= 2.0)
graphics, grDevices, methods, miceadds, mitools, Rcpp, stats,
survey (>= 3.31-5), utils, TAM (>= 2.0)
XML, haplo.stats, parallel, knitr, rmarkdown
XML, httr, haplo.stats, parallel, knitr, rmarkdown
ggplot2, MASS, methods, minpack.lm, numDeriv, parallel,
progress, rgl, robustbase, scales
ggplot2, MASS, methods, minpack.lm, numDeriv, parallel,
progress, rgl, robustbase, scales, nleqslv,
ggplot2, MASS, methods, minpack.lm, numDeriv, parallel,
progress, rgl, robustbase, scales, nleqslv
minpack.lm, raster, msm, httr, jsonlite, methods, graphics,
stats, utils
minpack.lm, raster, jsonlite, methods, graphics, stats, utils,
data.table (>= 1.9.8), rappdirs, sp
minpack.lm, raster, jsonlite, methods, proj4, graphics, stats,
utils, data.table (>= 1.9.8), rappdirs, sp
data.table, dbscan, dplyr, esquisse, geosphere (>= 1.5),
leaflet (>= 2.0), lubridate (>= 1.7.4), magrittr, mapedit (>=
0.5), methods, nnet, rgeos (>= 0.4), rgdal (>= 1.5), rlang, sf
(>= 0.7), shiny (>= 1.0), sp (>= 1.4-4), stringr (>= 1.4),
shotGroups, taxize, tidyr, xts
data.table, dbscan, dplyr, geosphere (>= 1.5), leaflet (>=
2.0), lubridate (>= 1.7.4), magrittr, methods, nnet, rgdal (>=
1.5), rgeos (>= 0.4), rlang, sf (>= 0.7), sp (>= 1.4-4),
stringr (>= 1.4), shotGroups, taxize, tidyr, xts, zoo
data.table, dplyr, esquisse, geosphere (>= 1.5), leaflet (>=
2.0), lubridate (>= 1.7.4), magrittr, mapedit (>= 0.5),
methods, nnet, rgeos (>= 0.4), rgdal (>= 1.4), rlang, sf (>=
0.7), shiny (>= 1.0), sp (>= 1.3), stringr (>= 1.4),
shotGroups, xts
data.table, dbscan, dplyr, geosphere (>= 1.5), leaflet (>=
2.0), lubridate (>= 1.7.4), magrittr, mapedit, methods, nnet,
rgdal (>= 1.5), rgeos (>= 0.4), rlang, sf (>= 0.7), stringr (>=
1.4), shotGroups, taxize, tidyr, xts, zoo
dplyr, readr, tidyr, tidyselect, rvest, xml2
RUnit (>= 0.4.22), timeSeries, fBasics, fMultivar, fPortfolio
(>= 3011.81)
methods, MASS, quadprog, RUnit (>= 0.4.22), timeSeries,
fBasics, fMultivar, fPortfolio (>= 3011.81)
methods, MASS, quadprog, RUnit (>= 0.4.22), timeSeries,
fBasics, fMultivar, fPortfolio (>= 3011.81), rmarkdown, knitr
Rcpp (>= 0.11.0), mvQuad, numDeriv, randtoolbox, Formula,
stats
Rcpp (>= 0.11.0), mvQuad, numDeriv, randtoolbox, Formula,
stats , Matrix
fields, graphics, grDevices, gsubfn, logOfGamma, MCMCpack,
mhsmm, multicool, pracma, stats, utils
httr, xml2, stringr, tibble, readr, methods
httr, xml2, stringr, tibble, readr, methods, purrr, dplyr,
rlang
BGLR, doSNOW, dplyr, foreach, matrixcalc, mvtnorm, progress,
snow, tidyr
BGLR, doSNOW, dplyr, foreach, matrixcalc, mvtnorm, progress,
snow, tidyr, Rcpp
corpcor, numDeriv, geiger, ape, TreeSim, phytools, phylobase,
mvtnorm, grDevices, graphics, methods, stats, lhs, viridis,
Matrix, DEoptim
corpcor, numDeriv, geiger, ape, TreeSim, mvtnorm, methods,
lhs, viridis, Matrix, DEoptim, igraph, MASS, grDevices,
ggplot2, cowplot, graphics, stats, metR, parallel, phytools,
plyr
corpcor, numDeriv, geiger, ape, TreeSim, phytools, phylobase,
mvtnorm, grDevices, graphics, methods, stats
matrixcalc, truncnorm, mvtnorm, plyr, MASS
matrixcalc, truncnorm, mvtnorm, plyr, MASS, compiler
Rcpp (>= 0.12.12), matrixcalc, truncnorm, mvtnorm, plyr, MASS,
compiler
Rcpp, matrixcalc, truncnorm, mvtnorm, plyr, MASS, compiler
compiler, gplots, MASS, matrixcalc, mvtnorm, plyr, Rcpp,
truncnorm
compiler, gplots, MASS, matrixcalc, mvtnorm, plyr, Rcpp (>=
1.0.5), truncnorm
DPpackage (>= 1.0.0), mnormt (>= 1.4.0), condMVNorm
ggplot2, gridExtra, survival, coda, dplyr, tidyr, viridis
methods, stats, ggplot2, coda, Rcpp, ggpubr
coda, ggplot2, plot3D, threejs, gridExtra
coda, ggplot2, plot3D, threejs, gridExtra, cubature, Formula,
plyr
coda, ggplot2, plot3D, threejs, gridExtra, cubature, Formula,
plyr,mgcv
coda, ggplot2, plot3D, threejs, gridExtra, cubature, Formula,
plyr, mgcv, corrplot
coda, ggplot2, plot3D, threejs, gridExtra, cubature, Formula,
plyr, mgcv, corrplot, label.switching
bnlearn, corpcor, glmnet, graph, stats, utils
base, extraDistr, gamlss, gamlss.dist, ggplot2, Deriv, dplyr,
graphics, pracma
berryFunctions, data.table, dplyr, Hmisc, rlang
foreach, doParallel, survival, MfUSampler, methods
glasso, ggplot2, stats, MASS, cvTools, grid, gridExtra,
foreach, coda, utils
glasso, ggplot2, MASS, mvtnorm, copula, cvTools, graphics,
gridExtra, foreach, coda, Rcpp, methods
glasso, ggplot2, MASS, mvtnorm, copula, graphics, gridExtra,
foreach, coda, Rcpp, methods
glasso, ggplot2, MASS, mvtnorm, copula, whitening, graphics,
gridExtra, foreach, coda, Rcpp, doRNG, methods, stringr, Rdpack
(>= 0.7)
glasso, ggplot2, MASS, mvtnorm, copula, whitening, graphics,
gridExtra, foreach, coda, Rcpp, doRNG, methods, stringr, Rdpack
(>= 0.7), DBI
rstiefel, Rcpp, ica, glmnet, gplots, BayesGPfit, svd,
RandomFieldsUtils, neurobase, oro.nifti, gridExtra, ggplot2,
gtools
rstiefel, Rcpp, ica, glmnet, gplots, BayesGPfit, svd,
neurobase, oro.nifti, gridExtra, ggplot2, gtools
coda, splines, actuar, rjags, R2OpenBUGS, ggplot2, plyr
actuar, coda, data.table, ggplot2, ggforce, graphics,
grDevices, gridExtra, plyr, reshape2, R2jags, splines, stats,
utils
actuar, coda, data.table, ggplot2, ggforce, graphics,
grDevices, gridExtra, plyr, reshape2, R2jags, scales, splines,
stats, utils
Rcpp, BTYD (>= 2.3), coda, data.table, mvtnorm, bayesm, stats,
graphics
mvtnorm, stats, graphics, utils, grDevices
rrBLUP, BGLR, glmnet, randomForest, brnn, e1071
rrBLUP, BGLR, glmnet, randomForest, brnn, e1071, stringi
data.table, tidyr, DEoptim, httr, docopt, stringr, jsonlite,
readr, devtools, RBMRB, BMRBr
foreach, R6, iterators, rTensor, RColorBrewer
igraph, methods, utils, stats, graphics, Rcpp
igraph, methods, utils, stats, graphics, ggplot2, reshape2,
glpkAPI, Rcpp
igraph, methods, utils, stats, graphics, ggplot2, reshape2,
glpkAPI, plyr, Rcpp
methods, utils, stats, graphics, ggplot2, reshape2, glpkAPI,
plyr, Rcpp, igraph, stringr, R.matlab
igraph, scales, networkD3, testthat, fields, methods
igraph, scales, networkD3, testthat, fields, methods, stringr
dplyr (>= 1.0.0), magrittr, methods, rlang, utils
checkmate (>= 1.1), BBmisc (>= 1.7), DBI, RSQLite, plyr
checkmate (>= 1.4), BBmisc (>= 1.7), DBI, RSQLite, plyr
checkmate (>= 1.5), BBmisc (>= 1.8), DBI, RSQLite (>= 1.0.0),
plyr
backports, utils, stats, checkmate (>= 1.8.5), BBmisc (>=
1.11), DBI, RSQLite (>= 2.0), data.table (>= 1.9.6)
stringr, curl, quantmod, XML, dplyr, tidyr
stringr, curl, quantmod, XML, tidyr, lubridate
stringr, curl, quantmod, XML, tidyr, lubridate, scales
stringr, curl, quantmod, XML, tidyr, lubridate, scales, furrr,
purrr, future, tibble
stringr, curl, quantmod, XML, tidyr, lubridate, scales, furrr,
purrr, future, tibble, zoo
stringr, curl, quantmod, XML, tidyr, lubridate, scales, furrr,
purrr, future, tibble, zoo, crayon
stringr, curl, quantmod, XML, tidyr, lubridate, scales, furrr,
purrr, future, tibble, zoo, crayon, cli, lifecycle
utils, digest, DBI, RSQLite, sendmailR, brew, plyr
utils, digest, DBI, RSQLite, sendmailR, brew, plyr, fail (>=
1.2)
utils, digest, DBI, RSQLite, sendmailR, brew, plyr, stringr,
fail (>= 1.2)
checkmate (>= 1.1), utils, stats, digest, DBI, RSQLite,
sendmailR, brew, stringr, fail (>= 1.2)
checkmate (>= 1.4), utils, stats, digest, DBI, RSQLite,
sendmailR, brew, stringr, fail (>= 1.2)
brew, checkmate (>= 1.5), DBI, digest, fail (>= 1.2), RSQLite
(>= 1.0.0), sendmailR, stats, stringr, utils
brew, checkmate (>= 1.5.1), DBI, digest, fail (>= 1.2),
parallel, RSQLite (>= 1.0.0), sendmailR, stats, stringr, utils
backports (>= 1.1.1), brew, checkmate (>= 1.8.0), data.table
(>= 1.9.6), DBI, digest, parallel, RSQLite (>= 1.0.9011),
sendmailR, stats, stringi (>= 0.4-1), utils
stats, graphics, grDevices, methods, hexbin, rjags (>= 4-6),
Luminescence (>= 0.7.4), ArchaeoPhases
stats, graphics, grDevices, methods, hexbin, rjags (>= 4-6),
Luminescence (>= 0.8.2), ArchaeoPhases
stats, graphics, grDevices, methods, hexbin, KernSmooth, rjags
(>= 4-6), Luminescence (>= 0.8.2), ArchaeoPhases
stats, graphics, grDevices, methods, hexbin, KernSmooth, rjags
(>= 4-10), runjags (>= 2.0.4), Luminescence (>= 0.8.2),
ArchaeoPhases (>= 1.5)
methods, hexbin (>= 1.28.2), KernSmooth (>= 2.23), rjags (>=
4-12), runjags (>= 2.2.0), Luminescence (>= 0.9.18),
ArchaeoPhases (>= 1.5)
Rcpp (>= 0.12.5), shiny, mritc, png, jpeg
coda, Rdpack, grDevices, MASS, mvtnorm, forestplot, metafor,
lme4
coda, Rdpack, grDevices, forestplot, metafor, lme4
coda, Rdpack, grDevices, forestplot, metafor, lme4, methods
mvtnorm, Rlab, truncdist, mnormt, rootSolve
checkmate (>= 1.8.0), coda, ggplot2 (>= 2.1.0), gridExtra,
plyr (>= 1.8.0)
reshape, Rook, RJSONIO, pbapply, mvtnorm, Rserve
pbapply, mvtnorm, stringr, methods, utils, graphics, coda,
utils
pbapply, mvtnorm, stringr, methods, utils, graphics, coda,
utils, knitr
pbapply, mvtnorm, stringr, utils, graphics, Rcpp (>= 0.11.2),
gtools
pbapply, mvtnorm, stringr, utils, graphics, gtools,
MatrixModels, Rcpp (>= 0.11.2)
pbapply, mvtnorm, stringr, utils, graphics, gtools,
MatrixModels, Rcpp (>= 0.11.2), methods
pbapply, mvtnorm, stringr, utils, graphics, gtools,
MatrixModels, Rcpp (>= 0.11.2), methods, hypergeo
pbapply, mvtnorm, stringr, utils, graphics, MatrixModels, Rcpp
(>= 0.11.2), methods, hypergeo
pbapply, mvtnorm, stringr, methods, utils, graphics, tools
pbapply, mvtnorm, stringr, methods, utils, graphics
pbapply, mvtnorm, stringr, utils, graphics
optimx, ghyp, fAsianOptions, coda, Rcpp (>= 0.12.17), MASS,
lme4, data.table
optimx, ghyp, fAsianOptions, coda, Rcpp (>= 0.12.17), MASS,
lme4, data.table, Matrix, methods
optimx, GeneralizedHyperbolic, gsl, coda, Rcpp (>= 0.12.17),
MASS, lme4, data.table, Matrix, methods
MCMCpack, FastGP, stats, Rcpp (>= 1.0.3), coda, mvtnorm,
fields, igraph, Matrix, mvnfast, Rcpp (>= 1.0.4.6), spam
Rdpack, Matrix, MASS, pracma, tmvtnorm, LaplacesDemon,
HDInterval
Rdpack, Matrix, pracma, tmvtnorm, LaplacesDemon, HDInterval,
coda
ggpubr, dplyr, tidyr, ggplot2, stringr, ggh4x, magrittr,
gtools, Rdpack
Rgraphviz, gRbase, igraph, RColorBrewer, fields, doBy, qtlnet,
methods, qtl, graph
Rgraphviz, gRbase, igraph, RColorBrewer, fields, doBy, qtlnet,
methods, qtl, graph, bnlearn
Rgraphviz, igraph, RColorBrewer, fields, doBy, qtlnet,
methods, qtl, graph, bnlearn
igraph, RColorBrewer, fields, doBy, methods, qtl, graph,
bnlearn, graphics, qtlnet
igraph, RColorBrewer, fields, doBy, methods, graph, bnlearn,
graphics
ordinal, schoolmath, tidyverse, fda, coda, gsDesign,
superdiag, ggplot2, madness, rjmcmc, R2jags, rjags, methods
ordinal, schoolmath, tidyverse, fda, coda, gsDesign,
superdiag, ggplot2, madness, rjmcmc, R2jags, rjags, methods,
DescTools
ordinal, schoolmath, coda, gsDesign, superdiag, ggplot2,
madness, rjmcmc, R2jags, rjags, methods,
carData, caTools, coda (>= 0.13), dplyr (>= 0.5.0), ggmcmc,
ggplot2, ggridges, R2jags, reshape2, rlang, ROCR, stats, tidyr
(>= 0.5.1)
carData, caTools, coda (>= 0.13), dplyr (>= 0.5.0), ggmcmc,
ggplot2, ggridges, R2jags, reshape2, rlang, stats, texreg,
runjags, tidyr (>= 0.5.1)
carData, caTools, coda (>= 0.13), dplyr (>= 0.5.0), ggmcmc,
ggplot2, ggridges, R2jags, reshape2, rlang, stats, texreg,
runjags, tidyr (>= 0.5.1), HDInterval, ROCR
carData, caTools, coda (>= 0.13), dplyr (>= 0.5.0), ggplot2,
ggridges, reshape2, rlang, stats, texreg, tidyr (>= 0.5.1),
HDInterval, ROCR, graphics, grDevices
carData, caTools, coda (>= 0.13), dplyr (>= 0.5.0), ggplot2,
ggridges, reshape2, rlang, stats, texreg, tidyr (>= 0.5.1),
HDInterval, ROCR, graphics, grDevices, R2jags, runjags,
rstanarm, rjags, MCMCpack, R2WinBUGS, brms
Rcpp (>= 1.0.1), MASS, batchmeans, abind, reshape, msm,
mvtnorm, plyr, Rdpack
rjags, ggplot2, metRology, grid, reshape, methods, coda
Matrix, stats, snowfall, abind, splines2
MCMCpack, FastGP, stats, Rcpp (>= 1.0.3), coda, dplyr,
reshape2
MCMCpack, FastGP, stats, Rcpp (>= 1.0.3), coda, dplyr,
reshape2, ggplot2, ape
MCMCpack, FastGP, stats, Rcpp (>= 1.0.3), coda, dplyr,
reshape2, ggplot2, ape, progress
MCMCpack, FastGP, stats, Rcpp (>= 1.0.3), coda, dplyr,
reshape2, ggplot2, ape, progress, rworldmap, countrycode
Rcpp, utils, xml2, stats, igraph, Matrix, fields, tikzDevice,
grDevices, graphics, BDgraph, data.table, plyr, scrime, gRbase
Rcpp, xml2, igraph, Matrix, tikzDevice, stats, utils,
grDevices, graphics
dplyr, ggplot2, rstan (>= 2.16.2), lme4,
methods, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>=
2.18.1), rstantools (>= 2.1.1), dplyr, ggplot2, lme4
graphics, extraDistr, runjags, coda, bridgesampling, parallel,
rstan
graphics, extraDistr, runjags, coda, bridgesampling, parallel,
ggplot2
graphics, extraDistr, runjags, coda, bridgesampling, parallel,
ggplot2, Rdpack
graphics, extraDistr, mvtnorm, rjags, runjags, coda,
bridgesampling, parallel, ggplot2, Rdpack
graphics, extraDistr, mvtnorm, coda, bridgesampling, parallel,
ggplot2, Rdpack
graphics, extraDistr, mvtnorm, runjags, coda, bridgesampling,
parallel, ggplot2, Rdpack
sp, maptools, colorspace (>= 0.97), coda, splines
sp, maptools, colorspace, coda, splines, methods
knitr, readxl, openxlsx, xlsx, stats, graphics, tcltk,
grDevices, ggplot2, methods, rstantools, car, hexbin, MASS,
crayon, DiagrammeR
knitr, readxl, xlsx, stats, graphics, tcltk, grDevices,
ggplot2, methods, car, crayon, DiagrammeR
knitr, readxl, xlsx, stats, graphics, tcltk, grDevices,
ggplot2, methods, car, crayon, DiagrammeR, bridgesampling
knitr, readxl, xlsx, stats, graphics, tcltk, grDevices,
ggplot2, methods, car, crayon, DiagrammeR, bridgesampling,
rhandsontable, shiny
knitr, readxl, xlsx, stats, graphics, tcltk, grDevices,
ggplot2, methods, car, crayon, DiagrammeR, bridgesampling,
rhandsontable, shiny, pracma, shinydashboard
knitr, readxl, xlsx, stats, graphics, tcltk, grDevices,
ggplot2, methods, car, crayon, DiagrammeR, bridgesampling,
rhandsontable, shiny, pracma, shinydashboard, shinythemes
knitr, readxl, xlsx, stats, graphics, tcltk, grDevices,
ggplot2, methods, car, crayon, bridgesampling, rhandsontable,
shiny, pracma, shinydashboard, shinythemes
knitr, stats, graphics, tcltk, grDevices, ggplot2, methods,
car, crayon, bridgesampling, rhandsontable, shiny, pracma,
shinydashboard, shinythemes, fastDummies, shinyjs
bnlearn, d3heatmap, lattice, networkD3, rhandsontable, shiny,
shinydashboard
bnlearn, heatmaply, lattice, networkD3, plotly, rintrojs,
shiny, shinyAce, shinydashboard
bnlearn, heatmaply, lattice, networkD3, plotly, rintrojs,
shiny, shinyAce, shinydashboard, shinytest, shinyWidgets,
testthat
dplyr, reshape2, ggplot2, tidyr, magrittr, tibble, ggforce,
shinythemes, shinyjs
dplyr, reshape2, ggplot2, tidyr, magrittr, tibble, ggforce
dplyr, reshape2, ggplot2, tidyr, magrittr, tibble, ggforce,
stats
dplyr, ggforce, ggplot2, magrittr, reshape2, stats, tibble,
tidyr, utils
coda, vioplot, emulator, mvtnorm, IDPmisc, Rcpp, ellipse,
numDeriv, msm, MASS, Matrix, stats, utils, graphics
coda, vioplot, emulator, mvtnorm, tmvtnorm, IDPmisc, Rcpp (>=
0.12.12), ellipse, numDeriv, msm, MASS, Matrix, stats, utils,
graphics, DHARMa
coda, emulator, mvtnorm, tmvtnorm, IDPmisc, Rcpp (>= 0.12.12),
ellipse, numDeriv, msm, MASS, Matrix, stats, utils, graphics,
DHARMa, bridgesampling
coda, emulator, mvtnorm, tmvtnorm, IDPmisc, Rcpp (>= 0.12.12),
ellipse, numDeriv, msm, MASS, Matrix, stats, utils, graphics,
DHARMa, gap, bridgesampling
LaplacesDemon, Rcsdp, MASS, ggplot2, ggridges, lavaan,
plotrix, coda, methods, stats, graphics, Rdpack
LaplacesDemon, MASS, lavaan, coda, methods, stats, graphics,
Rdpack, Rcpp (>= 1.0.4.6)
LaplacesDemon, Rcsdp, MASS, lavaan, coda, methods, stats,
graphics, Rdpack, Rcpp (>= 1.0.4.6)
LaplacesDemon, MASS, lavaan, coda, methods, stats, graphics,
progress, Rdpack, Rcpp (>= 1.0.4.6)
hdrcde, utils, MASS, ellipse, coda, mclust
utils, MASS, ellipse, coda, mclust, inline
utils, MASS, ellipse, coda, mclust, ggplot2, ggridges,
magrittr, purrr, viridis, ggforce, dplyr, scales, stringr
utils, MASS, coda, mclust, ggplot2, ggridges, magrittr, purrr,
ggforce, dplyr, scales, stringr
utils, MASS, coda, mclust, ggplot2, ggridges, magrittr, purrr,
ggforce, dplyr, scales, stringr, checkmate
MASS, mclust, graphics, statmod, ggplot2
Rcpp(>= 0.12.6), Matrix(>= 1.2-6), glmnet, survival
Rcpp(>= 0.12.8), Matrix(>= 1.2-6), glmnet, survival
Rcpp (>= 1.0.3), Matrix(>= 1.2-6), MASS, pheatmap, survival
methods, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>=
2.18.1), rstantools (>= 2.1.1), data.table, tidyr, ggplot2,
cowplot, dplyr, magrittr, utils, gridExtra, odeGUTS
methods, stats, graphics, grDevices, Rcpp
network, coda, MCMCpack, Matrix, mvtnorm
network, coda, MCMCpack, Matrix, mvtnorm, matrixcalc
network, coda, MCMCpack, Matrix, mvtnorm, matrixcalc,
statnet.common
network, coda, MCMCpack, Matrix, mvtnorm, matrixcalc,
statnet.common, Rglpk
betareg, lmtest, reshape, ggplot2, Rcpp, stats
Rcpp (>= 0.12.7), pcalg, methods, stats, utils
Rcpp (>= 0.12.7), methods, pcalg, Rgraphviz, graph
Rcpp (>= 0.12.7), methods, pcalg, graph, Rgraphviz
Rcpp (>= 0.12.7), methods, graph, Rgraphviz, RBGL, pcalg,
graphics
Rcpp (>= 0.12.7), methods, graph, Rgraphviz, RBGL, pcalg,
graphics, Matrix
Rcpp (>= 0.12.7), methods, graph, Rgraphviz, RBGL, pcalg,
graphics, Matrix, coda
dplyr, Hmisc, ggplot2, ggrepel, htmlwidgets, igraph, magrittr,
networkD3, tidyverse, visNetwork, ppcor
data.table, DT, magrittr, rBiasCorrection, shiny,
shinydashboard, shinyjs
data.table, DT, magrittr, rBiasCorrection (>= 0.3.4), shiny,
shinydashboard, shinyjs
tidyr, lavaan, mirt, MplusAutomation, mnormt
data.table, Rcpp (>= 1.0.6), RcppParallel (>= 5.0.2), RCurl,
rhdf5, utils
MASS, zoo, lattice, Rcpp, stats, utils, grDevices, graphics
MASS, zoo, Rcpp, stats, utils, grDevices, graphics, abind
edgeR, mgcv, pracma, quadprog, Rsamtools, GenomicAlignments,
GenomicRanges, IRanges, csaw(>= 1.12.0), SummarizedExperiment,
BiocGenerics, S4Vectors
edgeR, mgcv, pracma, quadprog, Rsamtools, GenomicAlignments,
GenomicRanges, IRanges, csaw(>= 1.12.0), SummarizedExperiment,
BiocGenerics, S4Vectors, RMySQL
Formula, expm, numDeriv, stats, lmtest, grDevices, graphics
RColorBrewer, htmlwidgets, jsonlite, plyr, grDevices
optimx, FD, parallel, xtable, plotrix, gdata
RCurl, XML, RGtk2, gWidgetsRGtk2, lattice
RCurl, rjson, rcdk (>= 3.3.2), Biostrings, GOSemSim,
ChemmineR, fmcsR, pls, randomForest, utils, stats, graphics,
methods, org.Hs.eg.db
RCurl, rjson, rcdk (>= 3.3.2), Biostrings, GOSemSim, MASS,
ChemmineR, fmcsR, pls, randomForest, utils, stats, graphics,
methods, org.Hs.eg.db
biomaRt, graphics, grDevices, plotrix, svglite
Rcpp (>= 0.12.1),MASS,e1071,randomForest,pROC,ROCR,
discretization,arules,pamr,class,nnet,rpart,rgl,FSelector,RWeka,
grDevices, graphics, stats, utils
rgl, MASS, e1071, randomForest, pROC, ROCR, discretization,
arules, pamr, class, nnet, rpart, FSelector, RWeka, grDevices,
graphics, stats, utils
rgl, MASS, e1071, randomForest, pROC, ROCR, arules, pamr,
class, nnet, rpart, FSelector, RWeka, grDevices, graphics,
stats, utils
cluster, dbscan, factoextra, gplots, RColorBrewer, stats,
graphics
MASS, stringr, utils, knitr, rmarkdown, Rcpp, graphics,
grDevices
stats, survival, MASS, stringr, utils, graphics, grDevices,
dplyr
basecamb, survival, survAUC, DescTools, Hmisc, stats, utils,
assertive.types
gWidgets, gWidgetsRGtk2, RGtk2, cairoDevice, plot3D,
plot3Drgl, rgl, network, sna, ergm, statnet.common, haven,
foreign
gWidgetsRGtk2, RGtk2, cairoDevice, plot3D, plot3Drgl, rgl,
network, sna, ergm, statnet.common, haven, foreign
RGtk2, cairoDevice, plot3D, plot3Drgl, rgl, network, sna,
ergm, statnet.common, haven, foreign
digest, gWidgets2, gWidgets2tcltk, plot3D, plot3Drgl, rgl,
network, sna, ergm, statnet.common, haven, foreign
Matrix, stats, Rdpack, BBmisc, dplyr, tibble, magrittr, rlang
ape, RSQLite, jsonlite, phangorn, plotrix
glmnet, pbapply, pROC, parallel, survival, risksetROC
data.table, gmp, PolygonSoup, Rcpp (>= 1.0.9)
gtable, e1071, tools, gridExtra, MASS(>= 7.3-29)
gridExtra, tools, gtable, e1071, MASS(>= 7.3-29)
brglm, gtools, lme4 (>= 1.0), qvcalc, stats
igraph, Matrix, Rcpp (>= 0.12.7), methods, purrr, dplyr
gridGraphics, gridSVG, moments, nortest, rmarkdown, xtable
devtools, extrafont, gridGraphics, gridSVG, moments, nortest,
rmarkdown, xtable
devtools, extrafont, grid, gridGraphics, gridSVG, moments,
nortest, pander, rmarkdown, utils, xtable
devtools, extrafont, ggplot2, grid, gridGraphics, gridSVG,
hunspell, knitr, magrittr, moments, nortest, pander, rmarkdown,
utils, XML, xtable
devtools, extrafont, ggplot2, grid, gridGraphics, gridSVG,
hunspell, knitr, magrittr, moments, nortest, reticulate,
rmarkdown, utils, whisker, XML, xtable
devtools, dplyr, extrafont, ggplot2, grid, gridGraphics,
gridSVG, hunspell, knitr, magrittr, moments, nortest,
reticulate, rmarkdown, roloc, rolocISCCNBS, utils, whisker,
XML, xtable
devtools, dplyr, extrafont, ggplot2, grid, gridGraphics,
gridSVG, hunspell, knitr, magrittr, mathjaxr, moments, nortest,
reticulate, rlang, rmarkdown, roloc, rolocISCCNBS, utils,
whisker, XML, xtable
Rcpp (>= 1.0.7), methods, stats, graphics
tidyr, stringr, readxl, dplyr(>= 0.3.0.1)
Rcpp, snowfall, stats, ggplot2, lme4, rrBLUP, Matrix,
Rcpp, snowfall, stats, ggplot2, lme4, rrBLUP, Matrix
Rcpp (>= 0.12.17), plyr, stats, graphics
Rcpp (>= 0.12.17), plyr, stats, utils, graphics
methods, lava, stats, stats4, tcltk, utils
doParallel, foreach, methods, lava, parallel, stats, stats4,
utils
data.table, doParallel, foreach, methods, lava, parallel,
prodlim, stats, stats4, utils
data.table, doParallel, foreach, methods, lava, parallel,
stats, stats4, utils
data.table, doParallel, foreach, ggplot2, methods, lava,
parallel, prodlim, stats, stats4, utils
data.table, doParallel, foreach, ggplot2, methods, lava,
parallel, prodlim, riskRegression, stats, stats4, utils
MASS, partykit, rpart, RColorBrewer, grDevices, gridExtra,
ggplot2, cluster, parallel, igraph, reshape2, qgraph, stats,
graphics
MASS, partykit, rpart, RColorBrewer, grDevices, gridExtra,
ggplot2, cluster, parallel, igraph, reshape2, qgraph, stats,
graphics,plyr, plot.matrix
MASS, partykit, rpart, RColorBrewer, grDevices, gridExtra,
ggplot2, cluster, parallel, igraph, reshape2, qgraph, stats,
graphics,plyr
MASS, partykit, rpart, RColorBrewer, grDevices, gridExtra,
ggplot2, cluster, parallel, igraph, stats, graphics,plyr,
ranger, randomForest, methods
ggplot2, plotly, tools, ggforce, gridExtra, ggrepel,
multichull, utils
pheatmap, pbapply, psych, ROCR, reshape2, dplyr, grDevices,
stats, methods, viridisLite
rJava, XML, lattice, bio.infer, gdata, gmodels, quantreg,
rpart, JavaGD, car, MASS
rJava, XML, lattice, bio.infer, gdata, gmodels, quantreg,
rpart, JavaGD, car, MASS, iplots, SparseM, MatrixModels,
gtools, png, pbkrtest, lme4, minqa, Rcpp, nloptr
rJava, XML, lattice, bio.infer, gdata, gmodels, quantreg,
rpart, JavaGD, car, MASS,
rbamtools, R2HTML, GenomicFeatures, biomaRt, AnnotationDbi
assertthat (>= 0.1), parallel (>= 3.5.0), pbmcapply (>= 1.2.5)
VAM, Seurat (>= 4.0.0), MASS, Matrix, dplyr, utils, edgeR,
org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, SeuratObject (>=
4.0.0)
VAM, Seurat (>= 4.0.0), MASS, Matrix (>= 1.3.3), dplyr, utils,
edgeR, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, SeuratObject
(>= 4.0.0)
VAM, Seurat (>= 4.0.0), MASS, Matrix (>= 1.3.3), utils,
BiocManager, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi,
SeuratObject (>= 4.0.0), methods, edgeR
VAM, Seurat (>= 4.0.0), MASS, Matrix (>= 1.3.3), utils,
BiocManager, org.Hs.eg.db, org.Dr.eg.db, org.Mm.eg.db,
AnnotationDbi, SeuratObject (>= 4.0.0), methods, edgeR
CARBayesdata, coda, sp, spam, spdep, stats, truncdist, utils
CARBayesdata, coda, matrixcalc, MCMCpack, sp, spam, spdep,
stats, truncdist, utils
CARBayesdata, coda, matrixcalc, MCMCpack, sp, spam, spdep,
stats, truncnorm, utils
CARBayesdata, coda, leaflet, matrixcalc, MCMCpack, rgdal, sp,
spam, spdep, stats, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, leaflet, matrixcalc,
MCMCpack, rgdal, sp, spam, spdep, stats, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, leaflet, MCMCpack, rgdal,
sp, spam, spdep, stats, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, leaflet, MCMCpack, sf,
spam, spdep, stats, truncnorm, utils
spam, truncdist, coda, stats, spdep, utils
CARBayesdata, coda, dplyr, matrixcalc, sp, spam, spdep, stats,
truncdist, utils
CARBayesdata, coda, dplyr, matrixcalc, sp, spam, spdep, stats,
testthat, truncdist, truncnorm, utils
CARBayesdata, coda, dplyr, gtools, leaflet, matrixcalc,
matrixStats, rgdal, sp, spam, spdep, stats, testthat,
truncdist, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, ggplot2, gridExtra, gtools,
leaflet, matrixcalc, matrixStats, rgdal, sp, spam, spdep,
stats, testthat, truncdist, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, ggplot2, gridExtra, gtools,
leaflet, matrixStats, MCMCpack, rgdal, sp, spam, spdep, stats,
truncdist, truncnorm, utils
CARBayesdata, cascsim, coda, dplyr, GGally, ggplot2,
gridExtra, gtools, leaflet, matrixStats, MCMCpack, rgdal, sp,
spam, spdep, stats, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, ggplot2, gridExtra, gtools,
leaflet, matrixcalc, matrixStats, MCMCpack, rgdal, sp, spam,
spdep, stats, testthat, truncdist, truncnorm, utils
CARBayesdata, coda, dplyr, GGally, ggplot2, gridExtra, gtools,
leaflet, matrixStats, MCMCpack, sf, spam, spdep, stats,
truncdist, truncnorm, utils
Rcpp, coda, Matrix, igraph, ggraph, ggplot2, MASS, methods
caret, stats, utils, ggplot2, graphics, reshape, FNN, plyr
caret, stats, utils, ggplot2, graphics, reshape, FNN, plyr,
zoo, methods, grDevices, data.table, lattice
MASS, png, rtf, season, magic, stats, graphics, utils,
grDevices, signal
MASS, png, rtf, season, magic, stats, graphics, utils,
grDevices, signal, assertr
MASS, png, rtf, season, magic, stats, graphics, utils,
grDevices, signal, assertr, CombMSC, Hmisc
raster, sp, rgdal, ggplot2, grDevices, spatialEco, rgeos,
lubridate, RStoolbox, fieldRS, rsMove
raster, sp, rgdal, ggplot2, grDevices, rgeos, lubridate,
RStoolbox, fieldRS, rsMove
Rcpp (>= 0.12.16), metap, magrittr, dplyr, tibble, stringr,
ggplot2, tidyr, glue
Rcpp (>= 0.12.16), metap, magrittr, dplyr, tibble, stringr,
ggplot2, tidyr, glue, pheatmap
Rcpp (>= 0.12.16), metap, magrittr, dplyr, tibble, stringr,
ggplot2, tidyr, glue, pheatmap, tools, readr
Rcpp (>= 0.12.16), metap, magrittr, dplyr, tibble, stringr,
ggplot2, tidyr, glue, pheatmap, tools, readr, parallel, R.utils
stats , utils , prettydoc , foreach , SuperLearner, parallel ,
doParallel
methods, rgdal, rgeos, geosphere, graphics, grDevices,
magrittr
dplyr, raster, methods, rgdal, rgeos, geosphere, graphics,
grDevices, magrittr
dplyr, geosphere, terra, graphics, raster, grDevices, magrittr
dplyr, geosphere, terra, graphics, raster, grDevices,
magrittr, stars
tcltk, rjags, psych, mvtnorm, polycor, MASS
tcltk, rjags, psych, mvtnorm, polycor, MASS, methods
plotly, dplyr, stats, magrittr, shiny, bs4Dash, fresh, DT,
tools, readxl, rmarkdown, readr
MASS, psych, polycor, sfsmisc, Rcpp (>= 0.11)
MASS, psych, polycor, sfsmisc, Rcpp (>= 0.11),
Rcpp (>= 0.11), psych, MASS, polycor, sfsmisc
Rcpp (>= 0.11), psych, MASS, polycor, sfsmisc, plyr
Rcpp, psych, MASS, polycor, sfsmisc, plyr, WrightMap, lattice
Rcpp, psych, MASS, polycor, sfsmisc, plyr, lattice
stats, graphics, utils, Rcpp, psych, MASS, polycor, sfsmisc,
plyr, lattice, grDevices, methods
stats, graphics, utils, grDevices, methods, Rcpp, psych, MASS,
polycor, sfsmisc, plyr, lattice
graphics, grDevices, lattice, MASS, methods, plyr, polycor,
psych, Rcpp, sfsmisc, stats, utils
graphics, grDevices, methods, polycor, Rcpp, sfsmisc, stats,
utils
graphics, grDevices, MASS, methods, polycor, Rcpp, sfsmisc,
stats, utils
graphics, grDevices, methods, polycor, Rcpp, stats, utils
dplyr, DBI (>= 0.3.0), checkmate, magrittr, dbplyr, pillar,
cli, purrr, rlang, tidyselect, readr, glue, waldo, arrow,
methods
Rcpp (>= 1.0.3), MASS, foreach, doParallel, dirmult,
RcppThread, iterators, parallel, qlcMatrix, gplots, grDevices,
clue, Biobase, Seurat, ggplot2, magrittr, dplyr, rlang, Matrix,
matrixStats, ggpubr
Rcpp (>= 1.0.0), Formula, formula.tools, ddpcr, Matrix
stats, mixtools, ggplot2, dplyr, ggsci, ggridges, ggprism
fastmatch, jsonlite, mongolite, parallel, readr, shiny,
udpipe, utils
MASS, stats, DEoptim, graphics, quadprog, Matrix, expm
MASS, stats, DEoptim, graphics, quadprog, Matrix, methods,
ParamHelpers, fastmatch
doSNOW (>= 1.0.16), foreach (>= 1.4.4), graphics, grDevices,
magrittr, methods, parallel (>= 3.3.3), pbapply (>= 1.3.3),
Rcpp, snow (>= 0.4.2), sp (>= 1.2.7)
partykit, CBPS, randomForest, twang, Rcpp, stats, glmnet
Rcpp (>= 0.12.1), abind, survival, doParallel, foreach
car, dplyr, ggplot2 (>= 2.2.1), methods, rlang (>= 0.1.6),
tibble
car, devtools, dplyr, ggplot2 (>= 2.2.1), ggrepel, methods,
rlang (>= 0.1.6), scales, tibble
broomExtra, car, devtools, dplyr, ggplot2 (>= 2.2.1), ggrepel,
methods, pwr, rlang (>= 0.1.6), scales, sjstats, tibble
broomExtra, car, DescTools, devtools, dplyr, ggplot2, ggrepel,
methods, pwr, rlang, scales, sjstats, tibble
BayesFactor, broom, car, DescTools, dplyr, forcats, ggplot2,
ggrepel, grid, methods, paletteer, partykit, purrr, rlang,
scales, sjstats, stats, stringr, tidyr
BayesFactor, broom, car, DescTools (>= 0.99.32), dplyr,
forcats, ggmosaic (>= 0.2.0), ggplot2 (>= 3.3.0), ggrepel,
grid, methods, paletteer, partykit, purrr, rlang, scales (>=
1.1.0), sjstats (>= 0.17.9), stats, stringr, tidyr
BayesFactor, broom, car, DescTools (>= 0.99.32), dplyr,
forcats, ggmosaic, ggplot2 (>= 3.3.0), ggrepel, grid, methods,
paletteer, partykit, purrr, rlang, scales (>= 1.1.0), sjstats
(>= 0.17.9), stats, stringr, tidyr
BayesFactor, broom, car, DescTools (>= 0.99.32), dplyr,
forcats, ggmosaic, ggplot2 (>= 3.3.0), ggrepel, methods,
paletteer, partykit, purrr, rlang, scales (>= 1.1.0), sjstats
(>= 0.17.9), stats, stringr, tidyr
BayesFactor, DescTools (>= 0.99.32), dplyr, forcats, ggmosaic,
ggplot2 (>= 3.3.0), ggrepel, methods, paletteer, partykit,
purrr, rlang, scales (>= 1.1.0), sjstats (>= 0.17.9), stats,
stringr, tidyr
grDevices, graphics, stats, utils, colorspace
mvtnorm, stringr, numDeriv, stats, Matrix
limma (>= 3.42.0), edgeR (>= 3.28.0), stats (>= 3.6.2),
foreach (>= 1.4.7), Seurat (>= 3.1.0), utils (>= 3.6.2),
pheatmap (>= 1.0.0), dbscan (>= 1.1-5), kernlab (>= 0.9-29),
doParallel, igraph, parallel, graphics, ggplot2, viridis
mvtnorm, msm, methods, Rcpp (>= 0.11.0), igraph
mvtnorm, msm, methods, Rcpp (>= 0.11.0), igraph, numDeriv,
pbivnorm
mvtnorm, msm, methods, Rcpp (>= 0.11.0), igraph, numDeriv,
pbivnorm, MASS
nnet, BART, twang, arm, dplyr, Matching, magrittr, car,
WeightIt, SuperLearner, tmle, tidyr, stats, class, gam
nnet, BART, twang, arm, dplyr, Matching, magrittr, car,
WeightIt, SuperLearner, tmle, tidyr, stats, class, gam, dbarts
nnet, BART, twang, arm, dplyr, Matching, magrittr, WeightIt,
tmle, tidyr, stats, ggplot2, cowplot, mgcv, metR, stringr,
SuperLearner, foreach, doParallel
igraph, network, sna, centiserve, FactoMineR, factoextra,
GGally, pheatmap, corrplot, dendextend, circlize, viridis,
ggplot2, Rtsne, qdapTools, plyr
igraph, network, sna, centiserve, FactoMineR, factoextra,
GGally, pheatmap, corrplot, dendextend, viridis, ggplot2,
Rtsne, qdapTools, plyr
igraph, network, sna, centiserve, FactoMineR, factoextra,
GGally, pheatmap, corrplot, dendextend, viridis, ggplot2,
Rtsne, qdapTools, plyr, circlize
igraph, network, sna, centiserve, FactoMineR, factoextra,
GGally, pheatmap, corrplot, dendextend, viridis, ggplot2,
Rtsne, qdapTools, plyr, circlize, intergraph
hash, stringi, DBI, grDevices, graphics, stats, utils
stringi, DBI, grDevices, graphics, stats, utils
Rcpp (>= 0.12.17), mgcv, MASS, nlme, compiler, stats
dplyr, ggforce, ggplot2, ggraph, igraph, magrittr, purrr, Rcpp
(>= 1.0.4), readr, stats, stringr, tibble, tidygraph, tidyr,
vroom
MASS, lme4, shiny, methods, isotone, stringr, prettyR, stats
MASS, nlme, methods, isotone, stringr, prettyR, stats,
openxlsx, graphics
nlme, methods, isotone, stringr, prettyR, stats, openxlsx,
graphics
parallel, sets, ggplot2, ggrepel, arules
parallel, sets, ggplot2, ggrepel, arules, dbscan
ggplot2 (>= 3.0.0), ggforce (>= 0.2.1.9000), here, scales,
readr, readxl, xlsx, usethis, lubridate, stringr
ggplot2 (>= 3.0.0), here, readxl, xlsx, usethis
readxl, ggplot2, dplyr, scales, reshape2, stringr
dplyr, htmltools, htmlwidgets (>= 1.2), jsonlite, magrittr,
r2d3, readxl, stringr, testthat, tibble, widgetframe
plyr, dplyr, htmltools, htmlwidgets (>= 1.2), jsonlite,
magrittr, r2d3, readxl, stringr, testthat, tibble, widgetframe
plyr, dplyr, htmlwidgets (>= 1.2), jsonlite, magrittr, r2d3,
readxl, testthat, tibble, widgetframe
plyr, dplyr, jsonlite, magrittr, r2d3, ggplot2, stringr,
tibble
methods, Rcpp (>= 0.12.0), rstan (>= 2.18.1), vegan,
rstantools (>= 2.1.1), tibble
tidyr,reshape2,magrittr, jointseg,plotly,shiny,RCurl,foreach,
GenomicInteractions,Matrix,OpenImageR,biomaRt,matrixStats,
plyr,data.table,dplyr,numbers,rtracklayer, doParallel,stringr
tidyr,reshape2,magrittr, jointseg,shiny,RCurl,foreach,
GenomicInteractions,Matrix,OpenImageR,biomaRt,matrixStats,
plyr,data.table,dplyr,numbers,rtracklayer, doParallel,stringr
tidyr,reshape2,magrittr, jointseg,shiny,RCurl,foreach,
GenomicInteractions,Matrix,OpenImageR,biomaRt,matrixStats,
plyr,data.table,dplyr,numbers, doParallel,stringr,rtracklayer
tidyr,reshape2,magrittr, jointseg,shiny,RCurl,foreach,
GenomicInteractions,Matrix,OpenImageR,biomaRt,matrixStats,
plyr,data.table,dplyr, doParallel,stringr,rtracklayer,Hmisc
Rcpp (>= 0.12.9), ape, PhyloMeasures, Matrix
Rcpp (>= 0.12.18), dplyr, ggplot2, stringr, coda, tidyr,
rlang, methods
methods, grDevices, graphics, stats, utils
stats, utils, mclust, earth, plyr, seqinr, randomForest,
rminer, GenomicRanges, GenomeInfoDb, S4Vectors, IRanges
readxl, pander, raster, REdaS, FactoMineR
readxl, pander, raster, REdaS, FactoMineR, gridExtra
devtools, utils, reshape2, dplyr, tidyr, sp, rgdal, ggplot2,
gganimate, ggthemes
survey, readr, dplyr, magrittr, RCurl, utils, timeDate,
readxl, tibble
survey, readr, dplyr, magrittr, projmgr, httr, RCurl, utils,
timeDate, readxl, tibble
dplyr, httr, magrittr, projmgr, RCurl, readr, readxl, survey,
tibble, timeDate, utils
MASS, stats, forestplot, grDevices, purrr, mvtnorm
magrittr, deSolve, dplyr, tibble, colorspace, patchwork,
latex2exp, tidyr, pracma, ape
dplyr, curl, shiny, shinyjs, miniUI, stringr, DT, lubridate,
utils
MASS, stats, logger, gbm, randomForest, methods, xgboost, RRF,
data.table, xtable, glmnet, bartCause, stabs, stringr,
SuperLearner, dplyr, magrittr, ggplot2, bcf, inTrees
Rcpp (>= 0.12.18), numDeriv, splines2, orthopolynom
MASS, mvtnorm, randomcoloR, graphics, stats, utils, png
MASS, mvtnorm, randomcoloR, lucid, dplyr, graphics, stats,
utils, png
utils, methods, doSNOW, foreach, Rcpp, snow
nlshrink, limSolve, Biobase, BisqueRNA, methods, plyr, Seurat,
MAST
methods, stats, graphics, grDevices, fabia, pls, FactoMineR,
elasticnet, randomcoloR, parallel, snowFT
fuzzyjoin, purrr, httr, stringr, jsonlite, magrittr, dplyr
fuzzyjoin, purrr, httr, stringr, jsonlite, magrittr, dplyr,
extrafont, ggplot2
fuzzyjoin, purrr, httr, stringr, jsonlite, magrittr, dplyr,
extrafont, ggplot2, future, furrr
fields, Kendall, lubridate, plotrix, timeDate, stringr,
jsonlite, ggplot2, ggspatial, stats, raster, here, sf, sp,
dplyr, magrittr, httr, tidyhydat, whitebox, plotKML, datasets
fields, Kendall, lubridate, plotrix, timeDate, stringr,
jsonlite, ggplot2, ggspatial, stats, raster, here, sf, dplyr,
magrittr, httr, tidyhydat, whitebox, datasets
fields, Kendall, lubridate, plotrix, timeDate, stringr,
ggplot2, ggspatial, stats, raster, sf, dplyr, magrittr, httr,
tidyhydat, whitebox, datasets
fields, Kendall, lubridate, plotrix, timeDate, stringr,
ggplot2, ggspatial, stats, raster, sf, dplyr, magrittr, httr,
tidyhydat, whitebox, datasets, circular
multiApply (>= 2.1.1), s2dv, stats, ClimProjDiags
Rcpp (>= 1.0.4), fda, splines, survival, locpol, dfoptim
s2dverification, rainfarmr, multiApply, ncdf4, plyr, abind,
data.table, reshape2, ggplot2, graphics, grDevices, stats,
utils
s2dverification, rainfarmr, multiApply, qmap, ClimProjDiags,
ncdf4, plyr, abind, data.table, reshape2, ggplot2, graphics,
grDevices, stats, utils, verification
s2dverification, s2dv, rainfarmr, multiApply (>= 2.1.1), qmap,
ClimProjDiags, ncdf4, plyr, abind, data.table, reshape2,
ggplot2, RColorBrewer, graphics, grDevices, stats, utils,
verification
s2dverification, s2dv, rainfarmr, multiApply (>= 2.1.1),
ClimProjDiags, ncdf4, plyr, abind, data.table, reshape2,
ggplot2, RColorBrewer, graphics, grDevices, stats, utils,
verification
s2dv, rainfarmr, multiApply (>= 2.1.1), ClimProjDiags, ncdf4,
plyr, abind, data.table, reshape2, ggplot2, RColorBrewer,
graphics, grDevices, stats, utils, verification
doParallel, relaxo, caret, futile.logger, glmnet, ncvreg,
shiny, shinyjs, DT, stats, MASS, datasets, grDevices, utils,
graphics, HDCI, parcor, reshape2, ggplot2
doParallel, relaxo, caret, futile.logger, glmnet, ncvreg,
shiny, shinyjs, DT, stats, MASS, datasets, grDevices, utils,
graphics, HDCI, reshape2, ggplot2
dplyr, magrittr, MASS, survival, shape, Gmisc, grid
assertthat, graphics, MittagLeffleR, plyr, stats, tea, utils,
zoo
xlsx, xtable, DT, lmerTest, nlme, haven, dplyr
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
R.utils, ECOSolveR, scs, stats
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
R.utils, ECOSolveR (>= 0.4), scs, stats
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
R.utils, ECOSolveR (>= 0.4), scs (>= 1.2.3), stats
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
R.utils, ECOSolveR (>= 0.5.1), scs (>= 1.2.3), stats
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
R.utils, ECOSolveR (>= 0.5.3), scs (>= 1.3), stats
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
ECOSolveR (>= 0.5.3), scs (>= 1.3), stats, osqp
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
ECOSolveR (>= 0.5.4), scs (>= 3.0), stats, osqp
methods, R6, Matrix, Rcpp (>= 0.12.12), bit64, gmp, Rmpfr,
ECOSolveR (>= 0.5.4), scs (>= 1.3), stats, osqp
stats, parallel, foreach, ggplot2, dplyr, glasso
shiny, htmltools, shinyjs, shinyWidgets, shinydashboard,
shinydashboardPlus, shinyjqui, plotly, rintrojs,
shinycssloaders, visNetwork, purrr, DT, magrittr, utils
R6, ggplot2, FactoMineR, DiceKriging, DiceDesign, MASS, coda,
parallel, testthat
R6, ggplot2, DiceKriging, DiceDesign, MASS, coda, parallel,
gridExtra, gtools
ggplot2, pROC, reshape2, parallel, foreach, utils, stats,
fitdistrplus, doParallel
ggplot2, pROC, reshape2, parallel, foreach, stats,
fitdistrplus, doParallel
grDevices, graphics, methods, stats, utils, survival, Hmisc
data.table, ggthemes, parallel, R6, shiny, shinyalert,
tidyverse
data.table, parallel, R6, shiny, shinyalert, tidyverse
data.table, dplyr, ggplot2, magrittr, methods, Rcpp, shiny
biogram, devtools, pbapply, ranger, shiny, stringi, dplyr
FNN, irlba, numbers, fpc, bluster, igraph, matrixStats
abind, animation, cluster, grid, igraph, lars, lattice, limma,
magic, methods, nnls, splines, stats4, survival, tnet, VGAM
R6, ranger, survival, tidyverse, cowplot, dplyr, data.table,
magrittr, rms, Rcpp, RcppParallel
Matrix (>= 1.2-6), data.table (>= 1.9.6), methods
survival, rms, CPE, rgenoud, mgcv, stats, graphics
survival, rms, rgenoud, mgcv, stats, graphics
dplyr, httr, lifecycle, mapSpain (>= 0.6.0), rappdirs (>=
0.3.0), sf (>= 1.0.0), stringi, terra, tibble, xml2
dplyr, httr, mapSpain (>= 0.6.0), rappdirs (>= 0.3.0), sf (>=
1.0.0), stringi, terra, tibble, xml2
cowplot, dplyr, ggplot2, grDevices, magrittr, stats, WriteXLS
parallel, data.table, SuperLearner, xgboost, earth, ranger,
gam, KernSmooth, MASS, polycor, wCorr, stats, ggplot2, rlang,
logger, glue, Rcpp, gnm, tidyr
parallel, data.table, SuperLearner, xgboost, earth, ranger,
gam, KernSmooth, MASS, polycor, wCorr, stats, ggplot2, rlang,
logger, Rcpp, gnm, tidyr
assertthat (>= 0.2.0), Boom, dplyr, ggplot2, zoo
assertthat (>= 0.2.0), Boom, ggplot2, zoo
fda, cvTools, quadprog, randomForest, deSolve, stats,
graphics, pspline, utils, glmnet, nnlasso, sundialr
fda, cvTools, quadprog, randomForest, deSolve, stats,
graphics, pspline, utils, glmnet, sundialr (>= 0.1.3)
fda, cvTools, quadprog, randomForest, deSolve, stats,
graphics, pspline, utils, glmnet, nnlasso, sundialr (>= 0.1.3)
CholWishart, forecast, MASS, Matrix, MixMatrix
stats, causaldata, boot, multcomp, geepack
dagitty, gtools, stats, randomizr, rlang (>= 0.2.0), rstan (>=
2.18.1), rstantools (>= 2.0.0), stringr
XML, R.utils, rjson, RMySQL, RCurl, stringr, yaml, boot,
foreach, data.table, glmnet, ggplot2
igraph (>= 0.6), stats, graphics, methods, grDevices,
parallel, Rgraphviz, graph
MASS, mvtnorm, glmnet, splines, survival, cvTools
MomTrunc, mnormt, mvtnorm, gridExtra, ggplot2
MomTrunc, mvtnorm, gridExtra, ggplot2, tlrmvnmvt
MomTrunc (>= 5.87), mvtnorm (>= 1.0.11), gridExtra, ggplot2,
tlrmvnmvt (>= 1.1.0)
mixsmsn, mnormt, mvtnorm, ClusterR, trimcluster
geoR, stats, graphics, mvtnorm, optimx, tmvtnorm, msm, psych,
numDeriv,raster,moments
geoR, stats, graphics, mvtnorm, optimx, tmvtnorm, msm, psych,
numDeriv,raster,moments,lattice
geoR, stats, graphics, mvtnorm, optimx, tmvtnorm, msm, psych,
numDeriv,raster,moments,lattice, tlrmvnmvt
geoR, stats, graphics, mvtnorm, optimx, tmvtnorm, msm, psych,
numDeriv (>= 2.11.1),raster,moments,lattice, tlrmvnmvt (>=
1.1.0)
geoR (>= 1.8-1), Rcpp, stats, graphics, mvtnorm, optimx (>=
2021.10-12), tmvtnorm (>= 1.4-10), msm, psych, numDeriv (>=
2.11.1),raster,moments (>= 0.14),lattice, tlrmvnmvt (>= 1.1.0)
batchtools (>= 0.9.9), data.table, dplyr, DT, ggplot2,
htmltools, jsonlite, magrittr, methods, plotly, reshape,
remotes, rlang, shiny, shinyjs, shinyWidgets, shinymaterial,
shinyjqui, sortable, ssh, utils, xml2
Matrix, actuar, Hmisc, methods, stats, statmod, reshape2,
tweedie
Matrix, actuar, Hmisc, methods, stats, statmod, reshape2,
MASS, lattice, grid, tweedie, cplm (>= 0.6.1), systemfit, utils
Matrix, actuar, Hmisc, methods, stats, statmod, reshape2,
MASS, lattice, grid, tweedie, utils
Matrix, actuar, Hmisc, methods, stats, reshape2, MASS,
lattice, grid, tweedie, utils
Matrix, actuar, methods, stats, reshape2, lattice, grid,
tweedie, utils, systemfit, statmod
Matrix, actuar, methods, stats, lattice, grid, tweedie, utils,
systemfit, statmod, cplm (>= 0.7-3), ggplot2, MASS
Matrix, actuar, methods, stats, lattice, grid, tweedie, utils,
systemfit, statmod, cplm (>= 0.7-3), ggplot2, MASS, mvtnorm
Matrix, actuar, methods, stats, reshape2, lattice, grid,
tweedie, utils, systemfit, statmod, cplm (>= 0.7-3), ggplot2
Matrix, actuar, methods, stats, reshape2, lattice, grid,
tweedie, utils, systemfit, statmod, cplm (>= 0.7-3), ggplot2,
MASS
Rcpp (>= 1.0.4), dplyr, purrr, tidyr, magrittr, bench, rlang,
ggplot2
ChannelAttribution, shiny, data.table, ggplot2, utils
gridExtra, sphereplot, plot3D, rgl, RColorBrewer, colorRamps
ggplot2, gridExtra, sphereplot, plot3D, RColorBrewer,
pls, seriation, amap, chemometrics, robustbase, RColorBrewer,
plyr, pcaPP, mvtnorm, mvoutlier, lattice, grid, rgl, R.utils,
mclust, mvbutils, MASS
pls, seriation, amap, chemometrics, robustbase, RColorBrewer,
plyr, pcaPP, mvtnorm, mvoutlier, lattice, grid, rgl, R.utils,
mclust, mvbutils, MASS, baseline
pls, seriation, amap, chemometrics, robustbase, RColorBrewer,
plyr, pcaPP, mvtnorm, mvoutlier, lattice, grid, rgl, R.utils,
mclust, MASS, baseline, IDPmisc
pls, seriation, amap, chemometrics, robustbase, RColorBrewer,
plyr, pcaPP, mvtnorm, mvoutlier, lattice, grid, rgl, R.utils,
mclust, MASS, baseline, IDPmisc, gsubfn
pls, amap, chemometrics, robustbase, RColorBrewer, plyr,
pcaPP, mvtnorm, mvoutlier, grid, rgl, R.utils, mclust, MASS,
baseline, IDPmisc, gsubfn, lattice, seriation
pls, amap, chemometrics, robustbase, RColorBrewer, plyr,
pcaPP, mvtnorm, mvoutlier, grid, rgl, R.utils, mclust, MASS,
baseline, IDPmisc, gsubfn, lattice, seriation, clusterCrit,
speaq
pls, amap, chemometrics, robustbase, RColorBrewer, plyr, grid,
rgl, R.utils, mclust, baseline, gsubfn, lattice, seriation,
clusterCrit, speaq, MASS, pcaPP, exCon, NbClust, jsonlite, js
plyr, stats, utils, grDevices, readJDX (>= 0.4)
plyr, stats, utils, grDevices, reshape2, readJDX (>= 0.6),
patchwork, ggplot2, plotly, magrittr
R.utils, tools, utils, plyr, ThreeWay, multiway, matrixStats
tools, utils, colorspace, readJDX, ggplot2
plyr, ggplot2, ggrepel, plotly, magrittr
XML, tools, ggplot2, plotly, rmarkdown, knitr, WriteXLS,
utils, grDevices, R.utils
Rcpp (>= 0.12.14), circular, RInside, coda, ggplot2
shiny (>= 0.13), miniUI (>= 0.1.1), rstudioapi (>= 0.5),
RefManageR
dataRetrieval, dplyr, EcoHydRology, geoknife, graphics,
grDevices, lubridate, reshape2, stats, tgp, utils, xts, zoo
gdata, graphics, grDevices, stats, utils
clipr, gdata, graphics, grDevices, stats, utils
clipr, gdata, geoscale, graphics, grDevices, methods, stats,
utils
clipr, geoscale, graphics, grDevices, methods, stats, utils
graphics, rgl, geometry, grDevices, stats
graphics, rgl, geometry, grDevices, stats, pracma
methods, graphics, stats, splines, Biobase
methods, stats, graphics, grDevices, mclust, oompaData,
Biobase
methods, DBI (>= 0.3.0), httr, jsonlite, arrow, data.table
PCICt, udunits2, ncdf4, fields, foreach, seas, abind, stats
httr, jsonlite, Matrix, methods, nasapower, PlackettLuce,
raster, RSpectra, tibble, tidyr, utils
httr, jsonlite, Matrix, methods, nasapower, PlackettLuce (>=
0.2-8), raster, RSpectra, tibble, tidyr, utils
climatrends, httr, jsonlite, Matrix, methods, RSpectra,
tibble, utils
httr, jsonlite, Matrix, methods, RSpectra
httr, jsonlite, Matrix, methods, RSpectra, sf, utils
httr, jsonlite, Matrix, methods, RSpectra, utils
multiApply, climdex.pcic, PCICt, plyr, stats
multiApply (>= 2.0.0), climdex.pcic, PCICt, plyr, stats
multiApply (>= 2.0.0), PCICt, plyr, stats
multiApply (>= 2.0.0), PCICt, plyr, climdex.pcic, stats
stats, ggplot2, reshape2, dplyr, emmeans, utils, officer,
flextable
stats, ggplot2, reshape2, dplyr (>= 0.8.0.1), emmeans (>=
1.3.2), officer (>= 0.3.3), utils, flextable (>= 0.5.1), xtable
stats, ggplot2, reshape2, dplyr (>= 0.8.0.1), emmeans (>=
1.3.2), officer (>= 0.3.3), utils, flextable (>= 0.5.1),
xtable, lme4, car
stats, ggplot2, reshape2, dplyr, emmeans, utils, officer,
flextable, xtable
stats, ggplot2, reshape2, dplyr, emmeans, utils, officer,
flextable (>= 0.5.1), xtable
lattice, caret, ggplot2, stats, cowplot, nloptr
colorspace, graphics, igraph, magrittr, Matrix, methods,
Polychrome, qgraph, stats, utils
colorspace, graphics, igraph, magrittr, Matrix, methods,
Polychrome, qgraph, stats, utils, parallel, pbapply
colorspace, graphics, igraph, magrittr, Matrix, methods,
Polychrome, qgraph, stats, utils, parallel, lessR, ohenery,
pbapply
methods, graphics, combinat, gtools, quantmod
methods, graphics, combinat, mc2d, quantmod
methods, graphics, combinat, gtools, quantmod, cluster, sirt
MASS, ggplot2 (>= 3.0.0), dplyr (>= 0.7.6), NbClust (>= 3.0),
amap (>= 0.8-16), tableone, rlang, stats
MASS, ggplot2 (>= 3.0.0), dplyr (>= 0.7.6), NbClust (>= 3.0),
amap (>= 0.8-16), tableone, stats, data.table, rlang
MASS, ggplot2 (>= 3.0.0), dplyr (>= 0.7.6), NbClust (>= 3.0),
amap (>= 0.8-16), tableone, rlang, stats, data.table
ClustOfVar, Hmisc, DescTools, extracat, marray, FD, gplots,
Matrix
ClustOfVar, Hmisc, DescTools, extracat, marray, FD, gplots,
Matrix, Biobase
Rcpp, parallel, ALDqr, ald, quantreg, VGAM
rgl, car, numDeriv, ggplot2, ggpubr, snow, doSNOW, foreach
rgl, ellipse, numDeriv, ggplot2, ggpubr, foreach, iterators,
parallel, doParallel
BAMBI, igraph, purrr, ggplot2, rlang, stats, utils
BAMBI, igraph, purrr, ggplot2, rlang, stats, utils, cowplot
Rcpp, MASS, parallel, mgcv, mvtnorm, Rmixmod
Rcpp, MASS, parallel, mgcv, mvtnorm, Rmixmod, VarSelLCM
Rcpp, MASS, parallel, mgcv, mvtnorm, Rmixmod, VarSelLCM (>=
2.1)
ggplot2, dplyr, fastcluster, rlang, Matrix, igraph, magrittr,
Rcpp, methods, stats
ggplot2, dplyr, fastcluster, rlang, Matrix, igraph, magrittr,
Rcpp, methods, stats, foreach, doParallel, irlba, progress,
reshape2, stringr, uwot
ClusterR, copula, dplyr, magrittr, rlang
ClusterR, copula, dplyr, magrittr, tidyr, ggplot2, rlang,
knitr
Rcpp, doParallel, foreach, parallel, iterators
Rcpp, doParallel, foreach, parallel, iterators, plyr
car, cluster, clValid, data.tree, dendextend, graphics,
jsonlite, mclust, methods, RCurl, reshape, reshape2, stringr,
tibble, utils
car, cluster, clValid, data.tree, dendextend, graphics,
jsonlite, mclust, methods, RCurl, reshape, reshape2, stringr,
utils
Rcpp (>= 0.12.5), OpenImageR, graphics, grDevices, utils, gmp,
FD, stats, ggplot2
Rcpp (>= 0.12.5), graphics, grDevices, utils, gmp, FD, stats,
ggplot2
Rcpp (>= 0.12.5), graphics, grDevices, utils, stats, gmp,
ggplot2
Rcpp (>= 0.12.5), graphics, grDevices, utils, stats, gmp,
ggplot2, lifecycle
apcluster, cluster, ClusterR, advclust, pvclust, gama, amap,
stats, pracma, tools, gmp, utils, xtable, sqldf, data.table
apcluster, cluster, ClusterR, advclust, pvclust, gama, amap,
stats, pracma, tools, gmp, utils, xtable, sqldf, data.table,
tidyverse, kableExtra
apcluster, cluster, ClusterR, advclust, pvclust, gama, amap,
stats, pracma, tools, gmp, utils, xtable, sqldf, data.table,
tidyverse, kableExtra, ggplot2
apcluster, cluster, ClusterR, advclust, pvclust, gama, amap,
stats, pracma, tools, gmp, utils, xtable, sqldf, data.table,
ggplot2, glue
advclust, amap, apcluster, cluster, ClusterR, data.table,
doParallel, dplyr, foreach, future, gama, ggplot2, gmp, pracma,
pvclust, shiny, sqldf, stats, tools, utils, xtable
advclust, amap, apcluster, cluster, ClusterR, data.table,
doParallel, dplyr, foreach, future, ggplot2, gmp, pracma,
pvclust, shiny, sqldf, stats, tools, utils, xtable
advclust, amap, apcluster, cluster, ClusterR, data.table,
doParallel, dplyr, foreach, future, ggplot2, gmp, pracma,
pvclust, shiny, sqldf, stats, tools, utils, xtable, toOrdinal
advclust, amap, apcluster, cluster, ClusterR, data.table,
doParallel, dplyr, foreach, future, ggplot2, gmp, methods,
pracma, pvclust, shiny, sqldf, stats, tools, utils, xtable,
toOrdinal
amap, apcluster, cluster, ClusterR, data.table, doParallel,
dplyr, foreach, future, ggplot2, gmp, methods, pracma, pvclust,
shiny, sqldf, stats, tools, utils, xtable, toOrdinal
data.table, igraph, magrittr, plyr, parallel, visNetwork,
reshape2, geometry, plot3D
data.table, igraph, magrittr, plyr, visNetwork
data.table, igraph, magrittr, plyr, visNetwork, reshape2
data.table, igraph, magrittr, plyr, parallel, visNetwork
gplots, grid, methods, parallel, stats, stringr
Rcpp (>= 1.0.5), KernSmooth, NonpModelCheck, ggplot2, gtools,
mvtnorm, splines2 (>= 0.3.1), truncnorm, rlang
Rcpp, data.table, pROC, graphics, mltools, stats, plyr,
ggplot2, ClustGeo, wesanderson
Rcpp, data.table, pROC, graphics, mltools, stats, plyr,
ggplot2, ClustGeo, wesanderson, grDevices
utils, methods, stats, grDevices, nloptr, MBA, Matrix, mAr,
matrixcalc, mvtnorm, plotly, cowplot, directlabels, animation,
pracma
utils, methods, stats, grDevices, nloptr, MBA, Matrix, mAr,
matrixcalc, mvtnorm, cowplot, directlabels, animation,
ggquiver, pracma, plot3D
dplyr, purrr, ggplot2, plotly, tidyr, parallel, doParallel,
foreach, openxlsx, forcats, epitools, zoo
zoo, stats, plyr, coin, Rdpack, exactRankTests (>= 0.8-29),
ggplot2 (>= 1.0.1)
R.utils, RSQLite, biganalytics, bigmemory, collUtils, dplyr,
ggplot2, methods, stringr, stats, haplo.stats
R.utils, RSQLite, biganalytics, bigmemory, collUtils, dplyr,
ggplot2, methods, stringr, stats
magrittr, dplyr, rlang, purrr, grDevices
ggnewscale, ggplot2, gridExtra, Matrix, RColorBrewer, reshape2
ape (>= 3.1-4), ggplot2 (>= 1.0.0), gridExtra, phangorn,
reshape
stats, copula, ggplot2, rootSolve, numDeriv
stats, utils, copula, ggplot2, ggpubr, rootSolve, numDeriv
fExtremes, actuar, VGAM, rmutil, PearsonDS
RandomFields, spam, scatterplot3d, fields, mapproj, methods,
maps
Rcpp, MASS, plyr, splines, fda, orthogonalsplinebasis, methods
Hmisc, MASS, GPArotation, lpSolve, nonparaeff
Hmisc, MASS, GPArotation, nonparaeff, smaa, np
sn, quantreg, mixture, BB, doParallel, parallel, foreach, MASS
sn, quantreg, mixture, BB, doParallel, parallel, foreach,
MASS, fields
sn, mixture, BB, doParallel, parallel, foreach, MASS, fields,
emplik
sn, mixture, doParallel, stats, parallel, foreach, MASS,
fields, emplik, fastR
sn, mixture, doParallel, stats, parallel, foreach, MASS,
fields, emplik, Rfast
sn, mixture, doParallel, stats, parallel, foreach, MASS,
fields, emplik, Rfast, RcppZiggurat
doParallel, emplik, foreach, MASS, mda, mixture, parallel,
Rfast, Rfast2, sn, stats
doParallel, emplik, foreach, MASS, mda, mixture, parallel,
RANN, Rfast, Rfast2, sn, stats
doParallel, emplik, FlexDir, foreach, MASS, mda, mixture,
parallel, RANN, Rfast, Rfast2, sn, stats
codalm, doParallel, emplik, FlexDir, foreach, MASS, mda,
mixture, nnet, parallel, RANN, Rfast, Rfast2, sn, stats
codalm, Directional, doParallel, emplik, FlexDir, foreach,
MASS, mda, mixture, NlcOptim, nnet, parallel, RANN, Rfast,
Rfast2, sn, stats
codalm, Directional, doParallel, emplik, FlexDir, foreach,
glmnet, MASS, mda, mixture, NlcOptim, nnet, parallel, pchc,
RANN, Rfast, Rfast2, sn, stats
codalm, Directional, doParallel, emplik, FlexDir, foreach,
glmnet, graphics, grDevices, MASS, mda, mixture, NlcOptim,
nnet, parallel, pchc, RANN, Rfast, Rfast2, sn, stats
codalm, Directional, doParallel, emplik, energy, FlexDir,
foreach, glmnet, graphics, grDevices, MASS, mda, mixture,
NlcOptim, nnet, parallel, pchc, RANN, Rfast, Rfast2, sn, stats
fields, geosphere, grDevices, maptools, methods, rgdal, rgeos,
spatstat
fields, geosphere, grDevices, maptools, methods, rgdal, rgeos,
spatstat, spatstat.utils
fields, geosphere, grDevices, maptools, methods, rgdal, rgeos,
spatstat, spatstat.utils, tibble, writexl, doParallel, plyr
fields, geosphere, grDevices, maptools, methods, rgdal, rgeos,
spatstat, spatstat.utils, tibble, writexl, doParallel, foreach
fields, geosphere, grDevices, methods, rgdal, rgeos, tibble,
writexl, snow, doSNOW, foreach, rnaturalearth, sf
VineCopula, pbapply, glmnet, ordinalNet, tree, nnet,
data.tree, statmod, pcaPP
VineCopula, pbapply, glmnet, ordinalNet, tree, nnet,
data.tree, statmod, wdm
methods, randomForest, quantregForest, lawstat, RPtests,
caTools, mgcv, MASS, kernlab
methods, randomForest, quantregForest, lawstat, RPtests,
caTools, mgcv, MASS, kernlab, pracma, mize
caret, survival, kernlab, purrr, tidyverse, survminer
glmnet, mvtnorm, stats, MASS, quantregForest
dplyr, tidyr, magrittr, caret, mlbench, lattice, scales,
ggplot2, tibble, e1071, randomForest
dplyr, tidyr, magrittr, caret, mlbench, lattice, scales,
ggplot2, e1071, randomForest, purrr, furrr
dplyr, tidyr, magrittr, caret, purrr, furrr
frequencyConnectedness, quantreg, MASS, progress, glmnet, xts,
zoo, rugarch, WeightedPortTest, urca, moments
frequencyConnectedness, rmgarch, rugarch, igraph, utils,
quantreg, MASS, progress, glmnet, xts, zoo, urca, moments,
riskParityPortfolio, methods
rlist (>= 0.4.2), methods, proxy, gtools
data.table (>= 1.10), forecast (>= 8.0), rlang (>= 0.4),
nloptr (>= 1.2), FME (>= 1.3), MCMCpack (>= 1.4), Rsolnp (>=
1.15), DEoptim (>= 2.2), dfoptim, GA (>= 3.0), GenSA (>= 1.1),
Metrics, ggplot2, adaptMCMC, Rcpp
mixture, mnormt, mclust, caret, mvtnorm, grDevices
geosphere, ggplot2, methods, raster, rgeos, rnaturalearth,
stats
dplyr, geosphere, ggplot2, graphics, methods, raster, rgbif,
rgeos, rgdal, rnaturalearth, stats, sp, tidyselect, utils
dplyr, geosphere, ggplot2, graphics, grDevices, methods,
raster, rgbif, rgeos, rgdal, rnaturalearth, stats, sp,
tidyselect, utils
dplyr, geosphere, ggplot2, graphics, methods, raster, rgeos,
rgdal, rnaturalearth, stats, sp, tidyselect, utils
glue, sf, utils, gdalUtils, doParallel, foreach
copula, corpcor, flexsurv, icenReg, magrittr, plotly, pracma,
survival
caret, copula, corpcor, flexsurv, icenReg, magrittr, plotly,
pracma, survival
ashr, reshape2, Matrix, gridExtra, corrplot, corpcor
ashr, glmnet, SQUAREM, reshape2, methods, Matrix, gridExtra,
corrplot, corpcor, MASS
lsa, methods, piano, Biobase, stats, rlang
checkmate (>= 1.5) , data.table (>= 1.10) , ranger , vcd
checkmate (>= 1.9.1) , data.table (>= 1.10) , ranger , vcd
checkmate (>= 1.9.1) , data.table (>= 1.10) , minpack.lm ,
ranger , SpatialTools , vcd
methods, stats, data.table (>= 1.9.6), RColorBrewer, rlist
methods, stats, data.table (>= 1.11.2), stringi, RColorBrewer,
rlist
boot, combinat, geepack, dirmult, mvtnorm
BinNonNor, BinOrdNonNor, GenOrd, moments, mvtnorm, psych
ggplot2, ggthemes, arm, COUNT, gridExtra, pcaPP, mvtnorm,
shiny
survival, Hmisc, foreach, doRNG, doParallel, parallel
quantreg, survival, Hmisc, foreach, doRNG, doParallel,
parallel
Matrix, Rcpp (>= 0.11.3), flexsurv, Formula, VGAM, optimx,
numDeriv, boot, MASS, car
Matrix, Rcpp (>= 0.11.3), Formula, VGAM, optimx, numDeriv,
boot, MASS, car
Matrix, Rcpp (>= 0.11.3), flexsurv, Formula, VGAM, optimx,
numDeriv, boot, MASS, car, utils
Matrix, Rcpp (>= 0.11.3), flexsurv, Formula, VGAM, optimx,
numDeriv, boot, MASS, car, utils, Rdpack, lattice,
RColorBrewer, dplyr, standardize, pscl, lmtest, xtable
Matrix, Rcpp (>= 0.11.3), flexsurv, Formula, VGAM, optimx,
numDeriv, boot, MASS, car, utils, Rdpack (>= 0.7-0), lattice,
RColorBrewer, dplyr, standardize, pscl, lmtest, xtable
bnlearn,MASS, bindata, Matching, doRNG, glmnet,
randomForest,foreach,xtable, doParallel
bnlearn,MASS, bindata, Matching, doRNG, glmnet,
randomForest,foreach,xtable, doParallel, bartMachine, tmle
Rcpp (>= 0.12.10), geigen, shapes, expm, mvtnorm, stats,
Matrix
Rcpp, geigen, shapes, expm, mvtnorm, stats, Matrix,
doParallel, foreach, parallel, pracma, utils
Rcpp, geigen, shapes, expm, mvtnorm, stats, Matrix,
doParallel, foreach, parallel, pracma
Rcpp, geigen, shapes, expm, mvtnorm, stats, Matrix,
doParallel, foreach, parallel, pracma, Rdpack
Rcpp, geigen, shapes, expm, mvtnorm, stats, Matrix,
doParallel, foreach, parallel, pracma, Rdpack, utils
Rcpp, geigen, shapes, expm, mvtnorm, stats, Matrix,
doParallel, foreach, parallel, pracma, Rdpack, utils, SHT
ggplot2, cowplot, seqinr, stringr, grDevices, graphics, utils,
ggpubr, dplyr, VennDiagram
Rcpp (>= 0.12.17), mclust, RColorBrewer, igraph
tpr, geepack, lgtdl, graphics, stats, lattice
cluster, mclust, flip, magrittr, purrr, utils, assertive,
crayon, glue, cli, dplyr
stats, sensitivitymw, parallel, plyr, tables
MASS, crossdes (>= 1.1-1), xtable, methods, Matrix, multcomp,
stats4, digest
MASS, crossdes (>= 1.1-1), xtable, methods, Matrix, rJava (>=
0.8-3), CommonJavaJars (>= 1.0.5), Rcpp (>= 0.10.3),
RcppArmadillo (>= 0.2.0), JavaGD, multcomp, stats4, digest
dplyr, DT, geosphere, mapdata, marmap, maps, shiny,
shinydashboard, shinyjs, stringr, swfscDAS (>= 0.3.0)
Matrix, Rcpp (>= 0.12.4), bit, ff, ffbase, RcppParallel,
methods
Matrix, Rcpp (>= 0.12.4), bit, ff, ffbase, RcppParallel,
methods, survival
Matrix, Rcpp (>= 0.12.4), bit, ff, ffbase, RcppParallel,
methods, survival, MASS
Matrix, Rcpp (>= 0.12.12), bit, ff, ffbase, RcppParallel,
methods, survival, MASS
Matrix, Rcpp (>= 0.12.12), bit, ff, ffbase, methods, survival,
MASS
rlang, Matrix, Rcpp (>= 0.12.12), Andromeda (>= 0.3.1), dplyr,
dbplyr, methods, survival
rlang, Matrix, Rcpp (>= 0.12.12), Andromeda (>= 0.3.1), dplyr,
methods, survival, bit64
ggplot2 (>= 3.0.0), MetBrewer, patchwork, reshape2,
reticulate, stats, testthat (>= 3.0.0)
jsonlite, methods, stats, aws.s3, uuid, jose
CytobankAPI, shiny, xlsx, shinyFiles, pheatmap
gRbase, lazy, RBGL, MASS, corpcor, infotheo, methods,
Rgraphviz
gRbase, lazy, RBGL, MASS, corpcor, methods, Rgraphviz
gRbase, lazy, RBGL, MASS, corpcor, methods, Rgraphviz, foreach
caret, devtools, dplyr, FSelector, ggplot2, ggrepel,
gridExtra, infotheo, mccr, mltools, ModelMetrics, questionr,
recipes, R6, tictoc, varhandle
Rcpp, beanplot, stats, parallel, graphics, grDevices
Rcpp (>= 0.11.6), beanplot, stats, parallel, graphics,
grDevices
data.table, magrittr, htmlwidgets, functional, RColorBrewer,
titanic
blavaan, utils, stats, flexmix, sfsmisc, truncnorm
tidytree, stats, methods, gtools, tibble, ape
deSolve, grDevices, graphics, stats, utils
deSolve, grDevices, graphics, stats, utils, DDD (> 3.0),
subplex
deSolve, grDevices, graphics, stats, utils, DDD (> 3.0),
subplex, Matrix, tensor
deSolve, graphics, stats, utils, DDD (>= 4.4), subplex,
Matrix, tensor, pracma, testit, foreach, doParallel, magrittr,
parallel
deSolve, graphics, stats, utils, DDD (>= 4.4), subplex,
Matrix, tensor, pracma, testit, foreach, doParallel, magrittr,
parallel, Rcpp (>= 1.0.5)
pdp, ggplot2, ALEPlot, breakDown, factorMerger, ggpubr
ggplot2, iBreakDown (>= 1.3.1), ingredients (>= 2.0)
reticulate, ggplot2, glmnet, ggdendro, gridExtra
caper, ape, deSolve, matrixStats, expm, picante, Matrix, DDD
(>= 3.0), stats, methods, Hmisc, DAISIE
caper, ape, deSolve, matrixStats, expm, picante, Matrix, DDD
(>= 3.4), stats, methods, Hmisc
lattice, sm, MASS, nnet, splines, pscl, gdata, xtable
lattice, sm, MASS, nnet, splines, pscl, gdata, xtable, QRM,
VGAM, boot
lattice, MASS, nnet, splines, pscl, gdata, xtable, VGAM, boot,
optiscale, fANCOVA, games, AICcmodavg, latticeExtra, coda
lattice, grid, car, effects, rstan, gdata, ggplot2, MASS,
nnet, splines, xtable, VGAM, boot, optiscale, fANCOVA,
AICcmodavg, latticeExtra, coda, glue, clarkeTest
lattice, grid, car, effects, rstan, gdata, ggplot2, MASS,
nnet, splines, xtable, boot, optiscale, fANCOVA, AICcmodavg,
latticeExtra, coda, glue, clarkeTest
lattice, MASS, nnet, splines, pscl, gdata, xtable, QRM, VGAM,
boot, optiscale, fANCOVA, games, AICcmodavg, latticeExtra, coda
lattice, grid, car, effects, rstan, gamlss, ggplot2, MASS,
nnet, splines, xtable, boot, optiscale, fANCOVA, AICcmodavg,
latticeExtra, coda, glue, clarkeTest, haven, survey, janitor,
tidyr, tidyselect, tibble, magrittr, dplyr, rlang, jtools, DT
lattice, grid, car, effects, rstan, gamlss, ggplot2, MASS,
nnet, splines, xtable, boot, optiscale, AICcmodavg,
latticeExtra, coda, glue, clarkeTest, haven, survey, janitor,
tidyr, tidyselect, tibble, magrittr, dplyr, rlang, jtools, DT
lattice, grid, car, effects, ggplot2, MASS, nnet, splines,
xtable, boot, optiscale, AICcmodavg, latticeExtra, coda,
clarkeTest, haven, survey, janitor, tidyr, tidyselect, tibble,
magrittr, dplyr, rlang, jtools, DT, srvyr
methods, testthat (>= 1.0.2), withr, DBI (>= 0.4-1)
DBI (>= 0.4-9), methods, R6, testthat (>= 1.0.2), withr
blob, DBI (>= 0.4-9), desc, hms, methods, R6, testthat (>=
1.0.2), withr
blob (>= 1.2.0), callr, DBI (>= 1.1.1), desc, hms (>= 0.5.0),
lubridate, methods, R6, rlang (>= 0.2.0), testthat (>= 2.0.0),
withr, vctrs
blob (>= 1.2.0), callr, DBI (>= 1.1.1), desc, hms (>= 0.5.0),
lubridate, methods, palmerpenguins, R6, rlang (>= 0.2.0),
testthat (>= 2.0.0), utils, withr, vctrs
blob (>= 1.2.0), callr, DBI (>= 1.1.3), desc, hms (>= 0.5.0),
lubridate, methods, palmerpenguins, R6, rlang (>= 0.2.0),
testthat (>= 2.0.0), utils, withr, vctrs
minpack.lm, SDD, TSA, lattice, stats, graphics, grDevices
dplyr, magrittr, stats, mvtnorm, combinat, GBJ, kit,
methods, GPArotation, PMA, coin, elasticnet, locfdr, modeest,
mvtnorm,
Rdpack, data.table, igraph, ggplot2, ROCR, lsa, Matrix,
lattice, WGCNA, qlcMatrix, foreach, plyr, doParallel
DT, shiny, shinythemes, survival, idefix, writexl, shinyjs,
MASS, stats
DT, shiny, shinythemes, survival, idefix, writexl, shinyjs,
MASS, stats, shinyhelper
DT, shiny, shinythemes, survival, idefix, writexl, shinyjs,
MASS, stats, shinyhelper, shinycssloaders, shinyglide,
htmltools, commonmark, stringr
DT, shiny, shinythemes, survival, idefix, writexl, shinyjs,
MASS, stats, shinyhelper, shinycssloaders, shinyglide,
htmltools, stringr, commonmark, bslib
DT, shiny, shinythemes, survival, idefix, writexl, shinyjs,
MASS, stats, shinyhelper, shinycssloaders, shinyglide,
htmltools, stringr, commonmark, bslib, mlogit, readxl
shiny, shinythemes, shinyWidgets, mvtnorm, DT, writexl,
readxl, idefix, tidyr, mlogit, knitr, fastDummies, tidyverse,
matrixStats, bslib, magrittr, htmltools, tibble, stringi,
dfidx, adjustedcranlogs, rmarkdown, rlist, remotes
BiocParallel, dplyr, Matrix, matrixStats, ape, phangorn, Rcpp,
igraph, methods, purrr, stringr, tidyr, tidyverse,
rBayesianOptimization, rlang
BiocParallel, dplyr, Matrix, matrixStats, ape, phangorn, Rcpp,
igraph, methods, purrr, stringr, tidyr, tidyverse,
rBayesianOptimization, rlang, BiocGenerics
rstan (>= 2.18.1), rstantools (>= 2.0.0), beepr, dplyr,
forcats, janitor, purrr, tibble, tidyr
doParallel, foreach, fracdiff, parallel, plotly, Rcpp, stats
xts, zoo, outliers, entropy, nnet, pracma, sandwich,
NeuralNetTools
xts, zoo, outliers, nnet, pracma, sandwich, NeuralNetTools
xts, zoo, outliers, nnet, pracma, sandwich, NeuralNetTools,
entropy
xts, zoo, outliers, nnet, pracma, sandwich
methods, xts, lme4, pscl, RColorBrewer, gridExtra,
latticeExtra
phytools, subplex, Matrix, expoRkit, SparseM
phytools, subplex, Matrix, expoRkit, SparseM, pracma
phytools, subplex, Matrix, expm, SparseM, pracma, testthat
deSolve, ape, phytools, subplex, Matrix, expm, SparseM,
testthat
deSolve, ape, phytools, subplex, Matrix, expm, SparseM
deSolve, ape, phytools, subplex, Matrix, expm, SparseM, Rcpp
(>= 1.0.5)
admisc (> 0.19), declared (> 0.14), tools, xml2, haven, readr,
readxl, writexl
admisc (> 0.25), declared (> 0.15), tools, xml2, haven,
readxl, writexl
admisc (> 0.28), declared (> 0.16), tools, xml2, haven,
readxl, writexl
admisc (>= 0.4), haven, readr, tibble, xml2
admisc (>= 0.12), haven, readr, tibble, tools, xml2
admisc (>= 0.16), readr, declared, haven, tools, xml2, readxl,
writexl
admisc (>= 0.17), readr, declared (>= 0.6), haven, tools,
xml2, readxl, writexl
admisc (> 0.17), readr, declared (> 0.6), haven, tools, xml2,
readxl, writexl
admisc (> 0.19), readr, declared (> 0.6), haven, tools, xml2,
readxl, writexl
Rcpp (>= 0.12.11), MASS, survival, mc2d, mvnfast
stats, ggplot2, ggalt, MEGENA, igraph, Hmisc, utils,
grDevices, plyr, scales, grid, VennDiagram
ActivePathways, pbapply, dplyr, ggplot2, glmnet, utils, stats,
ggrepel, downloader
utils, parglm, glmmTMB, foreach, tibble, ggplot2, ggpubr,
ggrepel, car, dplyr
raster, methods, sp, utils, grDevices, xml2
raster, methods, sp, utils, grDevices, xml2, rgdal, rgeos,
jsonlite
MASS, Matrix, graph, RBGL, SparseM, stats, methods
MASS, Matrix, graph, RBGL, SparseM, stats
ggplot2, pheatmap, RColorBrewer, ggthemes, MASS, plyr, ggsci,
SummarizedExperiment, methods, ggdendro, PoiClaClu, reshape2,
grDevices, stats, utils, gridExtra
graphics, stats, BayesFactor, MVN, utils
assertthat, magrittr, stringr, utils, GenomicRanges
assertthat, DGEobj (>= 1.0.3), dplyr, statmod, stats, stringr,
tidyr, edgeR, IHW, limma, qvalue, RNASeqPower, sva, zFPKM
assertthat, DGEobj (>= 1.0.3), dplyr, stats, stringr, edgeR,
limma, qvalue, sva
assertthat, DGEobj (>= 1.0.3), dplyr, methods, stats, stringr
compoisson, nloptr (>= 1.2.1), COMPoissonReg, progress
nloptr (>= 1.2.1), COMPoissonReg, progress
stats, graphics, utils, grDevices, gap, qrnn, lmtest, ape,
sfsmisc, MASS, doParallel, foreach, lme4
stats, graphics, utils, grDevices, gap, qrnn, lmtest, ape,
sfsmisc, MASS, doParallel, foreach, lme4, mgcv
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, qrnn, lmtest, ape, sfsmisc, MASS, lme4, mgcv,
glmmTMB (>= 0.2.1)
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, qrnn, lmtest, ape, sfsmisc, MASS, lme4, mgcv,
glmmTMB (>= 0.2.1), spaMM (>= 2.6.0)
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, qrnn, lmtest, ape, sfsmisc, MASS, lme4, mgcv,
glmmTMB (>= 1.0.0), spaMM (>= 2.6.0)
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, lmtest, ape, sfsmisc, MASS, lme4, mgcv, glmmTMB
(>= 1.0.0), spaMM (>= 2.6.0), qgam (>= 1.3.2)
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, lmtest, ape, sfsmisc, MASS, qgam (>= 1.3.2),
lme4, mgcv, glmmTMB (>= 1.0.1),
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, lmtest, ape, qgam (>= 1.3.2), lme4
stats, graphics, utils, grDevices, parallel, doParallel,
foreach, gap, lmtest, ape, qgam (>= 1.3.2), lme4, glmmTMB (>=
1.0.1)
stats, graphics, utils, grDevices, Matrix, parallel, gap,
lmtest, ape, qgam (>= 1.3.2), lme4
reshape, survey, stats, haven, matrixStats
reshape, survey, stats, haven, matrixStats, crayon
reshape, survey, stats, haven, matrixStats, dplyr, rlang,
crayon
dplyr (>= 1.0.0), fixest (>= 0.6.0), plotrix, stringr,
sampling, stats, parallel, assertthat
shiny, shinydashboard, difR, stats, readxl
cleaR, config, logger, magrittr, parsedate
cleaR, config, data.table, logger, magrittr, parsedate
config, data.table, DBI (>= 1.1.0), Hmisc, parsedate, psych,
rapportools, RJDBC, RJSONIO, RPostgres, shiny, shinyjs, xml2
config, data.table, Hmisc, parsedate, psych, rapportools,
RJSONIO, shiny, shinyjs, xml2
config, data.table, DBI (>= 1.1.0), Hmisc, magrittr,
parsedate, psych, rapportools, RJDBC, RJSONIO, RPostgres,
shiny, shinyjs, xml2
data.table, DBI (>= 1.1.0), DIZtools, Hmisc, magrittr, psych,
RJDBC, RJSONIO, RPostgres, xml2
data.table, DBI (>= 1.1.0), DIZtools, Hmisc, psych, RJDBC,
RJSONIO, RPostgres, xml2
config, data.table, DBI, RJDBC, RPostgres, shiny, shinyjs
config, data.table, DBI (>= 1.1.0), RJDBC, RPostgres, shiny,
shinyjs
config, data.table, DBI (>= 1.1.0), Hmisc, psych, rapportools,
RJDBC, RJSONIO, RPostgres, shiny, shinyjs, xml2
methods, graphics, stats, utils, hnp, rootSolve
methods, graphics, stats, utils, hnp, rootSolve, multcomp
methods, TSCAN, boot, httr, mclust, statmod, igraph, RWeka,
philentropy, NetIndices, png, grDevices, readr, RColorBrewer,
ggplot2, rpart, fpc, cluster, rpart.plot, tsne, AnnotationDbi,
org.Hs.eg.db, graphics, stats, utils, impute
methods, TSCAN, boot, httr, mclust, statmod, igraph, RWeka,
philentropy, NetIndices, png, grDevices, RColorBrewer, ggplot2,
rpart, fpc, cluster, rpart.plot, tsne, AnnotationDbi,
org.Hs.eg.db, graphics, stats, utils, impute
MASS, stats, splines, glmnet, SAM, locpol
abind, methods, LBSPR, grDevices, parallel, readxl, stats,
utils
abind, coda, methods, LBSPR, grDevices, MASS, mvtnorm,
parallel, r4ss, readxl, stats, utils
abind, coda, devtools, methods, LBSPR, grDevices, MASS,
mvtnorm, parallel, r4ss, readxl, stats, utils
abind, coda, devtools, methods, LBSPR, grDevices, ggplot2,
gridExtra, ggrepel, knitr, MASS, mvtnorm, openxlsx, parallel,
r4ss, readxl, rmarkdown, stats, utils
abind, coda, devtools, methods, grDevices, ggplot2, gridExtra,
ggrepel, knitr, MASS, mvtnorm, openxlsx, parallel, r4ss,
readxl, rmarkdown, stats, utils
abind, broom, devtools, dplyr, fmsb, methods, grDevices,
ggplot2, gridExtra, ggrepel, kableExtra, knitr, MASS, mvtnorm,
openxlsx, parallel, purrr, readxl, rfishbase, rmarkdown, stats,
tidyr, utils
abind, boot, broom, devtools, dplyr, fmsb, methods, grDevices,
ggplot2, gridExtra, ggrepel, kableExtra, knitr, MASS, mvtnorm,
openxlsx, parallel, purrr, readxl, rfishbase, rmarkdown, stats,
shiny, tidyr, utils
abind, boot, broom, devtools, DT, dplyr, fmsb, methods,
grDevices, ggplot2, gridExtra, ggrepel, kableExtra, knitr,
MASS, mvtnorm, openxlsx, parallel, purrr, readxl, rfishbase,
rmarkdown, stats, shiny, tidyr, utils
abind, boot, broom, crayon, devtools, DT, dplyr, fmsb,
methods, grDevices, ggplot2, gridExtra, ggrepel, kableExtra,
knitr, MASS, mvtnorm, openxlsx, parallel, purrr, readxl,
rfishbase, rmarkdown, stats, shiny, tidyr, utils
abind, dplyr, methods, grDevices, ggplot2, parallel, stats,
utils
abind, dplyr, methods, grDevices, ggplot2, parallel, Rcpp,
stats, utils
dplyr, ggplot2, graphics, methods, Rcpp, stats
dplyr, ggplot2, graphics, methods, Rcpp, stats, TMB (>=
1.7.22)
Rcpp (>= 0.12.16), dplyr (>= 1.0.0), optimr, parallel,
pbapply, tibble, tidyr,
Rcpp (>= 0.12.16), dplyr (>= 1.0.0), optimr, parallel,
pbapply, tidyr,
DEoptim, Rcpp (>= 0.12.16), dplyr (>= 1.0.0), optimr,
parallel, pbapply, tidyr
DEoptim, Rcpp (>= 0.12.16), dplyr (>= 1.0.0), parallel,
pbapply, shiny, tidyr
rlang, gbm ,lmtest ,nnet , sandwich,randomForest,caret,ISLR
igraph, spdep, fdrtool, GOstats, locfdr, mvtnorm, caTools
dplyr, tidytext, stringr, stats, utils, magrittr
dplyr, magrittr, stats, stringr, tibble, tidytext, utils
stats, MASS, sensitivity2x2xk, graphics, sensitivitymult,
sensitivitymv, senstrat
stats, graphics, methods, utils, sfsmisc
stats, graphics, methods, utils, sfsmisc (>= 1.1-9)
stats, graphics, methods, utils, sfsmisc (>= 1.1-10)
stats, graphics, methods, utils, sfsmisc (>= 1.1-13)
DPQ (>= 0.4-2), Rmpfr, gmp, stats, graphics, methods, utils
DPQ (>= 0.4-3), Rmpfr, gmp, stats, graphics, methods, utils
truncdist, binaryLogic, prodlim, survival, Rcpp (>= 0.12.4)
data.table, daterangepicker, DIZutils (>= 0.0.12), DQAstats
(>= 0.2.3), DT, jsonlite, knitr, lubridate, magrittr,
parsedate, shiny, shinyalert, shinydashboard, shinyFiles,
shinyjs, shinyWidgets, waiter
data.table, daterangepicker, DIZtools, DIZutils (>= 0.0.12),
DQAstats (>= 0.2.3), DT, jsonlite, knitr, lubridate, magrittr,
parsedate, shiny, shinyalert, shinydashboard, shinyFiles,
shinyjs, shinyWidgets, waiter
data.table, daterangepicker, DIZtools (>= 0.0.5), DIZutils (>=
0.1.0), DQAstats (>= 0.3.0), DT, jsonlite, knitr, lubridate,
magrittr, parsedate, shiny, shinyalert, shinydashboard,
shinyFiles, shinyjs, shinyWidgets, waiter
data.table, daterangepicker, DIZtools (>= 0.0.5), DIZutils (>=
0.1.1), DQAstats (>= 0.3.1), DT, jsonlite, knitr, lubridate,
magrittr, parsedate, shiny, shinyalert, shinydashboard,
shinyFiles, shinyjs, shinyWidgets, waiter
data.table, DIZutils, e1071, future, future.apply, jsonlite,
kableExtra, knitr, magrittr, parsedate, rmarkdown, RPostgres,
stats, tinytex, utils
data.table, DIZutils (>= 0.0.12), future, future.apply,
jsonlite, kableExtra, knitr, magrittr, parsedate, rmarkdown,
stats, tinytex, utils
data.table, DIZtools, DIZutils (>= 0.0.13), future,
future.apply, jsonlite, kableExtra, knitr, magrittr, parsedate,
rmarkdown, stats, tinytex, utils
data.table, DIZtools (>= 0.0.5), DIZutils (>= 0.1.0), future,
future.apply, jsonlite, kableExtra, knitr, magrittr, parsedate,
rmarkdown, stats, tinytex, utils
data.table, DIZtools (>= 0.0.5), DIZutils (>= 0.1.1), future,
future.apply, jsonlite, kableExtra, knitr, magrittr, parsedate,
rmarkdown, stats, tinytex, utils
CompQuadForm, cowplot, ggplot2, GiRaF, MASS, Matrix, mclust,
methods, purrr, RColorBrewer, Rcpp (>= 1.0.5), Seurat, stats
CompQuadForm, cowplot, ggplot2, GiRaF, MASS, Matrix, mclust,
methods, purrr, S4Vectors, RColorBrewer, Rcpp (>= 1.0.5),
Seurat, stats
CompQuadForm, irlba, cowplot, ggplot2, GiRaF, MASS, Matrix,
mclust, methods, purrr, S4Vectors, RColorBrewer, Rcpp (>=
1.0.5), Seurat, stats
stats, utils, tools, coda, gridExtra, ggplot2, reshape,
lubridate (>= 1.7.0)
spatstat, spdep, raster, maptools, sp, utils, stats
graphics, grDevices, maptools, PBSmapping, raster, sp,
spatstat, spdep, stats, utils
graphics, grDevices, maptools, PBSmapping, raster, sp,
spatstat.geom, spatstat.core, spatstat.linnet, spatstat (>=
2.0-0), spdep, stats, utils
graphics, grDevices, maptools, PBSmapping, raster, sp,
spatstat.geom, spatstat.linnet, spatstat (>= 2.0-0), spdep,
stats, utils
ChemmineR, GSVA, clusterProfiler, graphics, igraph, pheatmap,
rvest, xml2, stats
deSolve (>= 1.13), knitr (>= 1.15), adaptivetau (>= 2.2),
utils
adaptivetau (>= 2.2), deSolve (>= 1.13), dplyr (>= 0.7.4),
ggplot2 (>= 2.2), gridExtra (>= 2.3), lhs (>= 0.15), nloptr,
plotly, rlang, stats, tidyr, utils (>= 3.4), XML (>= 3.98)