To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ReactomePA")

In most cases, you don't need to download the package archive at all.

ReactomePA

 

   

This is the development version of ReactomePA; for the stable release version, see ReactomePA.

Reactome Pathway Analysis

Bioconductor version: Development (3.4)

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.

Author: Guangchuang Yu <guangchuangyu at gmail.com> with contributions from Vladislav Petyuk

Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>

Citation (from within R, enter citation("ReactomePA")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ReactomePA")

Documentation

HTML R Script An R package for Reactome Pathway Analysis
PDF   Reference Manual
Text   NEWS

Details

biocViews Annotation, GeneSetEnrichment, MultipleComparison, Pathways, Reactome, Software, Visualization
Version 1.17.2
In Bioconductor since BioC 2.10 (R-2.15) (4 years)
License GPL-2
Depends R (>= 3.2.0), DOSE(>= 2.9.6)
Imports AnnotationDbi, reactome.db, igraph, graphite, GOSemSim
LinkingTo
Suggests BiocStyle, clusterProfiler, knitr, org.Hs.eg.db
SystemRequirements
Enhances
URL http://guangchuangyu.github.io/ReactomePA
BugReports https://github.com/GuangchuangYu/ReactomePA/issues
Depends On Me
Imports Me bioCancer, debrowser
Suggests Me ChIPseeker, CINdex, clusterProfiler
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source ReactomePA_1.17.2.tar.gz
Windows Binary ReactomePA_1.17.2.zip
Mac OS X 10.9 (Mavericks) ReactomePA_1.17.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/ReactomePA
Package Short Url http://bioconductor.org/packages/ReactomePA/
Package Downloads Report Download Stats

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