ReactomeGSA

DOI:10.18129/B9.bioc.ReactomeGSA

Client for the Reactome Analysis Service for comparative multi-omics gene set analysis

Bioconductor version: Release (3.16)

The ReactomeGSA packages uses Reactome's online analysis service to perform a multi-omics gene set analysis. The main advantage of this package is, that the retrieved results can be visualized using REACTOME's powerful webapplication. Since Reactome's analysis service also uses R to perfrom the actual gene set analysis you will get similar results when using the same packages (such as limma and edgeR) locally. Therefore, if you only require a gene set analysis, different packages are more suited.

Author: Johannes Griss [aut, cre]

Maintainer: Johannes Griss

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("ReactomeGSA")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("ReactomeGSA")

HTML	R Script	Analysing single-cell RNAseq data
HTML	R Script	Using the ReactomeGSA package
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

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Version	1.12.0
In Bioconductor since	BioC 3.10 (R-3.6) (3 years)
License	MIT + fileLICENSE
Depends
Imports	jsonlite,httr,progress,ggplot2, methods,gplots,RColorBrewer,dplyr,tidyr
LinkingTo
Suggests	testthat,knitr,rmarkdown,ReactomeGSA.data,Biobase,devtools
SystemRequirements
Enhances	limma,edgeR,Seurat(>= 3.0),scater
URL	https://github.com/reactome/ReactomeGSA
BugReports	https://github.com/reactome/ReactomeGSA/issues
Depends On Me	ReactomeGSA.data
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Followbob 体育网址 instructions to use this package in your R session.

Source Package	ReactomeGSA_1.12.0.tar.gz
Windows Binary	ReactomeGSA_1.12.0.zip
macOS Binary (x86_64)	ReactomeGSA_1.12.0.tgz
macOS Binary (arm64)	ReactomeGSA_1.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ReactomeGSA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ReactomeGSA
Bioc Package Browser	https://code.bioconductor.org/browse/ReactomeGSA/
Package Short Url	//www.anjoumacpherson.com/packages/ReactomeGSA/
Package Downloads Report	Download Stats