ReactomePA: Reactome Pathway Analysis

This package provides functions for pathway analysis based on REACTOME pathway database. It implements enrichment analysis, gene set enrichment analysis and several functions for visualization.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("ReactomePA")
AuthorGuangchuang Yu [aut, cre], Vladislav Petyuk [ctb]
Bioconductor views Annotation GeneSetEnrichment MultipleComparison Pathways Reactome Visualization
Date of publicationNone
MaintainerGuangchuang Yu <guangchuangyu@gmail.com>
LicenseGPL-2
Version1.20.0
https://guangchuangyu.github.io/ReactomePA

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/ReactomePA-package.R R/enrichPathway.R R/gseAnalyzer.R R/utilities.R R/viewPathway.R R/zzz.R
README.md
build
build/vignette.rds
inst
inst/CITATION
inst/doc
inst/doc/ReactomePA.R
inst/doc/ReactomePA.Rmd
inst/doc/ReactomePA.html
man
man/DataSet.Rd man/ReactomePA-package.Rd man/enrichPathway.Rd man/getALLEG.Rd man/getDb.Rd man/gsePathway.Rd man/viewPathway.Rd
tests
tests/testthat
tests/testthat.R tests/testthat/test-getDb.R
vignettes
vignettes/ReactomePA.Rmd
vignettes/ReactomePA.bib
vignettes/figures
vignettes/figures/E2F.png
vignettes/figures/clusterProfiler.png
vignettes/figures/cnetplot.png
vignettes/figures/enrichMap.png
vignettes/figures/enrichMap_gsea.png
vignettes/nature.csl

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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