GSEABase

DOI: 10.18129/B9.bioc.GSEABase  

Gene set enrichment data structures and methods

Bioconductor version: Release (3.16)

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>

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

Installation

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

 

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

Details

biocViews GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version 1.60.0
In Bioconductor since BioC 2.1 (R-2.6) (15.5 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, Cepo, cpvSNP, GSVAdata, npGSEA, PROMISE, splineTimeR, TissueEnrich
Imports Me AUCell, BioCor, canceR, Category, categoryCompare, cellHTS2, cosmosR, EnrichmentBrowser, escape, gep2pep, GISPA, GlobalAncova, GmicR, GSRI, GSVA, 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_1.60.0.tar.gz
Windows Binary GSEABase_1.60.0.zip
macOS Binary (x86_64) GSEABase_1.60.0.tgz
macOS Binary (arm64) GSEABase_1.60.0.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: