GSEABase

This is the released version of GSEABase; for the devel version, see GSEABase.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5

Gene set enrichment data structures and methods

Bioconductor version: Release (3.23)

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>

Citation (from within R, enter citation("GSEABase")):

Martin Morgan, Seth Falcon, Robert Gentleman. GSEABase: Gene set enrichment data structures and methods. doi:10.18129/B9.bioc.GSEABase, R package version 1.74.0, https://bioconductor.org/packages/GSEABase.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version	1.74.0
In Bioconductor since	BioC 2.1 (R-2.6) (19 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
System Requirements
URL

Suggests	hgu95av2.db, GO.db, org.Hs.eg.db, Rgraphviz, ReportingTools, testthat, BiocStyle, knitr, RUnit
Linking To
Enhances
Depends On Me	AGDEX, BicARE, CCPROMISE, Cepo, cpvSNP, GSVAdata, npGSEA, PROMISE, splineTimeR, TissueEnrich
Imports Me	AUCell, BioCor, canceR, Category, categoryCompare, cosmosR, dreamlet, EnrichmentBrowser, gep2pep, GlobalAncova, GmicR, GSRI, GSVA, mastR, miRSM, mogsa, msigdb, oppar, PanomiR, phenoTest, postNet, PROMISE, RcisTarget, ReportingTools, scTGIF, signatureSearch, singIST, singleCellTK, singscore, slalom, sparrow, TFutils, TMSig, vissE, zenith
Suggests Me	BaseSet, BiocSet, clustermole, epiregulon.extra, escape, gage, globaltest, GOstats, GSAR, GSEAlm, MAST, pathMED, phenoTest
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	GSEABase_1.74.0.tar.gz
Windows Binary (x86_64)	GSEABase_1.74.0.zip
macOS Binary (big-sur-x86_64)	GSEABase_1.74.0.tgz
macOS Binary (sonoma-arm64)	GSEABase_1.74.0.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