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 package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see ReactomePA.

Reactome Pathway Analysis

Bioconductor version: 3.3

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	1.16.2
In Bioconductor since	BioC 2.10 (R-2.15) (4.5 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	debrowser
Suggests Me	ChIPseeker, CINdex, clusterProfiler
Build Report

Package Archives

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

Package Source	ReactomePA_1.16.2.tar.gz
Windows Binary	ReactomePA_1.16.2.zip
Mac OS X 10.9 (Mavericks)	ReactomePA_1.16.2.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/ReactomePA/tree/release-3.3
Package Short Url	http://bioconductor.org/packages/ReactomePA/
Package Downloads Report	Download Stats

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