Title: An R Client to the 'PatentsView' API
Description: Provides functions to simplify the 'PatentsView' API

Title: Concise Structure for Chainable Paths
Description: Provides path_chain class and functions, which facilitates loading and saving
directory structure in YAML configuration files via 'config' package.
The file structure you created during exploration can be transformed
into legible section in the config file, and then easily loaded for further usage.
Suggests: testthat (>= 2.1.0), knitr, rmarkdown, config, yaml, fs,
Packaged: 2020-09-16 21:03:38 UTC; krzysztof

Title: Classification using biological pathways as prior knowledge
Description: pathClass is a collection of classification methods that
use information about how features are connected in the
underlying biological network as an additional source of
information. This additional knowledge is incorporated into the
classification a priori. Several authors have shown that this
approach significantly increases the classification
Depends: R (>= 2.9.0), svmpath, kernlab, affy, Biobase, ROCR, Matrix,

use information about feature connectivity in a biological
network as an additional source of information. This additional
knowledge is incorporated into the classification a priori.
Several authors have shown that this approach significantly

Depends: R (>= 2.9.0), svmpath, kernlab, affy, Biobase, ROCR, igraph,

Depends: R (>= 2.10), svmpath, kernlab, affy, Biobase, ROCR, igraph,

Depends: R (>= 2.14), svmpath, kernlab, affy, Biobase, ROCR, igraph,

Title: Basic Functions for Drawing Path Diagrams
Description: Implementation of simple functions to draw
basic path diagrams just for visualization purposes.
Collate: 'arrow.R' 'draw.R' 'latent.R' 'manifest.R' 'wall.R'

Title: Basic functions for drawing path diagrams

Title: Pathway Enrichment Analysis Utilizing Active Subnetworks
Description: Pathway enrichment analysis enables researchers to uncover mechanisms
underlying the phenotype. pathfindR is a tool for pathway enrichment analysis
utilizing active subnetworks. It identifies active subnetworks in a
protein-protein interaction network using user-provided a list of genes.
It performs pathway enrichment analyses on the identified subnetworks.
pathfindR also offers functionality to cluster enriched pathways and identify
representative pathways. The method is described in detail in
Ulgen E, Ozisik O, Sezerman OU. 2018. pathfindR: An R Package for Pathway
Enrichment Analysis Utilizing Active Subnetworks. bioRxiv. <doi:10.1101/272450>.
Imports: AnnotationDbi, DBI, doParallel, foreach, rmarkdown,
Depends: R (>= 3.4), pathview, knitr, shiny