Title: Analyzing the Heterogeneity of Single-Cell Populations
Description: A bioinformatics method developed for analyzing the heterogeneity of single-cell populations. Phitest provides an objective and automatic method to evaluate the performance of clustering and quality of cell clusters.

Authors@R: person("Sebastian", "Kuhlgert", email = "sebastian.kuhlgert@gmail.com", role = c("aut", "cre"))
Description: Connect R to the PhotosynQ platform (<https://photosynq.org>). It allows to login and logout,
as well as receive project information and project data. Further it transforms the received JSON objects
into a data frame, which can be used for the final data analysis.

Title: Run Phoenix NLME and Perform Post-Processing
Maintainer: Chay Ngee Lim <limxx356@umn.edu>
Description: Calls 'Phoenix NLME' (non-linear mixed effects), a population
modeling and simulation software, for pharmacokinetics and pharmacodynamics
analyses and conducts post-processing of the results. This includes creation of
various diagnostic plots, bootstrap and visual predictive checks. See <http://
Imports: ggplot2, gridExtra, manipulate, grid, lattice, testthat
SystemRequirements: Phoenix NLME with Phoenix Modeling Language (PML)

Title: Marks periods of sleep in Actigraph accelerometer data
Author: J. Dustin Tracy, Zhiyi Xu, Leena Choi, Sari Acra, Kong Y. Chen, Maciej S. Buchowski
Maintainer: J. Dustin Tracy <jtracy2@student.gsu.edu>
Description: Applies an automated algorithm to mark Actigraph accelerometer data as either bedrest or active.  There are separate functions for waist and wrist data.  Its input is a dataframe with a timestamp column and one of counts.  The output is the same dataframe with an additional column, bedrest.  Bedrest will have "a" active or "br" for each line.  Options also allow for "n" nap which only differ than "s" in being for a shorter (specifiable) time period.  Designed to be used after wearmarking function in Physical Activity package.

Title: Rapid Calculation of Phylogenetic Information Content
Authors@R: c(person("Alex", "Dornburg",email="alex.dornburg@naturalsciences.org",role=c("aut","cre", "cph")),person("J. Nick", "Fisk", email="jnf3769@rit.edu",role=c("aut", "cph")),person("Jules", "Tamagnan",email="jules.tamagnan@yale.edu",role=c("aut", "cph")), person("Jeffrey","Townsend",email="jeffrey.townsend@yale.edu",role=c("aut", "cph")))
Description: Enables rapid calculation of phylogenetic information content using the latest advances in phylogenetic informativeness based theory. These advances include modifications that incorporate uneven branch lengths and any model of nucleotide substitution to provide assessments of the phylogenetic utility of any given dataset or dataset partition. Also provides new tools for data visualization and routines optimized for rapid statistical calculations, including approaches making use of Bayesian posterior distributions and parallel processing. Users can apply these approaches toward screening datasets for phylogenetic/genomic information content.
Imports: phytools, splines, gplots, RColorBrewer, foreach, iterators,
geiger, doParallel, gridExtra, hexbin, PBSmodelling, ape,
Packaged: 2016-11-13 19:09:16 UTC; admadornburg