GSEABase

DOI: 10.18129/B9.bioc.GSEABase    

Gene set enrichment data structures and methods

Bioconductor version: Release (3.13)

This package provides classes and methods to support Gene Set Enrichment Analysis (GSEA).

Author: Martin Morgan, Seth Falcon, Robert Gentleman

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("GSEABase")

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

Documentation

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

browseVignettes("GSEABase")

 

PDF	R Script	An introduction to GSEABase
PDF		Reference Manual
Text		NEWS

Details

biocViews	GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version	1.54.0
In Bioconductor since	BioC 2.1 (R-2.6) (14 years)
License	Artistic-2.0
Depends	R (>= 2.6.0), BiocGenerics(>= 0.13.8), Biobase(>= 2.17.8), annotate(>= 1.45.3), methods, graph(>= 1.37.2)
Imports	AnnotationDbi, XML
LinkingTo
Suggests	hgu95av2.db, GO.db, org.Hs.eg.db, Rgraphviz, ReportingTools, testthat, BiocStyle, knitr
SystemRequirements
Enhances
URL
Depends On Me	AGDEX, BicARE, CCPROMISE, cpvSNP, GSVAdata, npGSEA, PROMISE, splineTimeR, TissueEnrich
Imports Me	AUCell, BioCor, canceR, Category, categoryCompare, cellHTS2, EnrichmentBrowser, escape, gep2pep, GISPA, GlobalAncova, GmicR, GSRI, GSVA, MIGSA, miRSM, mogsa, msigdb, oppar, PCpheno, phenoTest, POST, PROMISE, RcisTarget, ReportingTools, scTGIF, signatureSearch, singleCellTK, singscore, SingscoreAMLMutations, slalom, TFutils, vissE
Suggests Me	BiocCaseStudies, BiocSet, gage, globaltest, GOstats, GSAR, GSEAlm, MAST, phenoTest, TFEA.ChIP
Links To Me
Build Report

Package Archives

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

Source Package	GSEABase_1.54.0.tar.gz
Windows Binary	GSEABase_1.54.0.zip
macOS 10.13 (High Sierra)	GSEABase_1.54.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GSEABase
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GSEABase
Package Short Url	https://bioconductor.org/packages/GSEABase/
Package Downloads Report	Download Stats