GSEABase

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see GSEABase.

Gene set enrichment data structures and methods


Bioconductor version: 3.9

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 "3.6") 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 PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version 1.46.0
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
Linking To
Enhances
Depends On Me AGDEX, BicARE, CCPROMISE, cpvSNP, gCMAP, GSVAdata, npGSEA, PROMISE, singscore, splineTimeR, TissueEnrich
Imports Me AUCell, BioCor, canceR, Category, categoryCompare, cellHTS2, EnrichmentBrowser, gCMAPWeb, gep2pep, GISPA, GlobalAncova, GSRI, GSVA, HTSanalyzeR, MIGSA, miRSM, mogsa, oppar, PCpheno, phenoTest, POST, PROMISE, RcisTarget, ReportingTools, SingscoreAMLMutations, slalom
Suggests Me BiocCaseStudies, gage, globaltest, GOstats, GSAR, GSEAlm, MAST, PGSEA, phenoTest, singleCellTK, TFEA.ChIP, TFutils
Links To Me
Build Report Build Report

Package Archives

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

Source Package GSEABase_1.46.0.tar.gz
Windows Binary GSEABase_1.46.0.zip
Mac OS X 10.11 (El Capitan) GSEABase_1.46.0.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
Old Source Packages for BioC 3.9 Source Archive