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GSEABase

This is the development version of GSEABase; for the stable release version, see GSEABase.

Gene set enrichment data structures and methods


Bioconductor version: Development (3.20)

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")):

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version 1.67.0
In Bioconductor since BioC 2.1 (R-2.6) (16.5 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
System Requirements
URL
See More
Suggests hgu95av2.db, GO.db, org.Hs.eg.db, Rgraphviz, ReportingTools, testthat, BiocStyle, knitr, RUnit
Linking To
Enhances
Depends On Me AGDEX, BicARE, CCPROMISE, cpvSNP, npGSEA, PROMISE, splineTimeR, TissueEnrich, GSVAdata, OSCA.basic
Imports Me AUCell, BioCor, canceR, Category, categoryCompare, cosmosR, dreamlet, EnrichmentBrowser, escape, gep2pep, GlobalAncova, GmicR, GSRI, GSVA, mastR, miRSM, mogsa, oppar, PanomiR, phenoTest, PROMISE, RcisTarget, ReportingTools, scTGIF, signatureSearch, singleCellTK, singscore, slalom, TFutils, vissE, zenith, msigdb, SingscoreAMLMutations, clustermole, RVA
Suggests Me BiocSet, gage, globaltest, GOstats, GSAR, MAST, phenoTest, BaseSet
Links To Me
Build Report Build Report

Package Archives

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

Source Package GSEABase_1.67.0.tar.gz
Windows Binary GSEABase_1.67.0.zip
macOS Binary (x86_64) GSEABase_1.67.0.tgz
macOS Binary (arm64) GSEABase_1.67.0.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