GSEABase

DOI: 10.18129/B9.bioc.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 (3.8)

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 and enter:

if (!require("BiocManager"))
    install.packages("BiocManager")
BiocManager::install("GSEABase", version = "devel")

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 1.43.0
In Bioconductor since BioC 2.1 (R-2.6) (11 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
SystemRequirements
Enhances
URL
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, GSRI, GSVA, HTSanalyzeR, MIGSA, mogsa, oppar, PCpheno, phenoTest, POST, PROMISE, RcisTarget, ReportingTools, slalom, TFutils
Suggests Me BiocCaseStudies, clusterProfiler, gage, GlobalAncova, globaltest, GOstats, GSAR, GSEAlm, MAST, PGSEA, phenoTest, TFEA.ChIP
Build Report  

Package Archives

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

Source Package GSEABase_1.43.0.tar.gz
Windows Binary GSEABase_1.43.0.zip
Mac OS X 10.11 (El Capitan) GSEABase_1.43.0.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 http://bioconductor.org/packages/GSEABase/
Package Downloads Report Download Stats

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