GSEABase

DOI: 10.18129/B9.bioc.GSEABase  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see GSEABase.

Gene set enrichment data structures and methods

Bioconductor version: 3.17

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

Author: Martin Morgan [aut], Seth Falcon [aut], Robert Gentleman [aut], Paul Villafuerte [ctb] ('GSEABase' vignette translation from Sweave to Rmarkdown / HTML), Bioconductor Package Maintainer [cre]

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

Installation

To install this package, start R (version "4.3") and enter:

if (!require("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")

 

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

Details

biocViews	GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version	1.62.0
In Bioconductor since	BioC 2.1 (R-2.6) (16 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, RUnit
SystemRequirements
Enhances
URL
Depends On Me	AGDEX, BicARE, CCPROMISE, Cepo, cpvSNP, GSVAdata, npGSEA, PROMISE, splineTimeR, TissueEnrich
Imports Me	AUCell, BioCor, canceR, Category, categoryCompare, cellHTS2, cosmosR, EnrichmentBrowser, escape, gep2pep, GISPA, GlobalAncova, GmicR, GSRI, GSVA, mastR, MIGSA, miRSM, mogsa, msigdb, oppar, PanomiR, phenoTest, PROMISE, RcisTarget, ReportingTools, scTGIF, signatureSearch, singleCellTK, singscore, SingscoreAMLMutations, slalom, sparrow, TFutils, vissE, zenith
Suggests Me	BiocSet, gage, globaltest, GOstats, GSAR, GSEAlm, MAST, phenoTest
Links To Me
Build Report

Package Archives

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

Source Package	GSEABase_1.62.0.tar.gz
Windows Binary	GSEABase_1.62.0.zip
macOS Binary (x86_64)	GSEABase_1.62.0.tgz
macOS Binary (arm64)	GSEABase_1.62.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GSEABase
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GSEABase
Bioc Package Browser	https://code.bioconductor.org/browse/GSEABase/
Package Short Url	https://bioconductor.org/packages/GSEABase/
Package Downloads Report	Download Stats