ReactomePA

DOI: 10.18129/B9.bioc.ReactomePA    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see ReactomePA.

Reactome Pathway Analysis

Bioconductor version: 3.7

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 [aut, cre], Vladislav Petyuk [ctb]

Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>

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

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ReactomePA")

 

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	1.24.0
In Bioconductor since	BioC 2.10 (R-2.15) (6.5 years)
License	GPL-2
Depends	R (>= 3.4.0)
Imports	AnnotationDbi, DOSE(>= 3.5.1), enrichplot, ggplot2, ggraph, reactome.db, igraph, graphite
LinkingTo
Suggests	BiocStyle, clusterProfiler, knitr, org.Hs.eg.db, prettydoc, testthat
SystemRequirements
Enhances
URL	https://guangchuangyu.github.io/software/ReactomePA
BugReports	https://github.com/GuangchuangYu/ReactomePA/issues
Depends On Me
Imports Me	bioCancer, LINC, miRsponge
Suggests Me	ChIPseeker, CINdex, clusterProfiler
Links To Me
Build Report

Package Archives

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

Source Package	ReactomePA_1.24.0.tar.gz
Windows Binary	ReactomePA_1.24.0.zip
Mac OS X 10.11 (El Capitan)	ReactomePA_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ReactomePA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ReactomePA
Package Short Url	http://bioconductor.org/packages/ReactomePA/
Package Downloads Report	Download Stats