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Bioconductor - topGO

topGO

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

Enrichment Analysis for Gene Ontology

Bioconductor version: Release (3.21)

topGO package provides tools for testing GO terms while accounting for the topology of the GO graph. Different test statistics and different methods for eliminating local similarities and dependencies between GO terms can be implemented and applied.

Author: Adrian Alexa, Jorg Rahnenfuhrer

Maintainer: Adrian Alexa <adrian.alexa at gmail.com>

Citation (from within R, enter citation("topGO")): Installation

To install this package, start R (version "4.5") and enter:


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

BiocManager::install("topGO")

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("topGO")
Details biocViews Microarray, Software, Visualization Version 2.60.1 In Bioconductor since BioC 2.0 (R-2.5) (18 years) License LGPL Depends R (>= 2.10.0), methods, BiocGenerics(>= 0.13.6), graph(>= 1.14.0), Biobase(>= 2.0.0), GO.db(>= 2.3.0), AnnotationDbi(>= 1.7.19), SparseM (>= 0.73) Imports lattice, matrixStats, DBI System Requirements URL See More Suggests ALL, hgu95av2.db, hgu133a.db, genefilter, xtable, multtest, Rgraphviz, globaltest Linking To Enhances Depends On Me BgeeDB, compEpiTools, EGSEA, ideal, moanin, tRanslatome, maEndToEnd Imports Me APL, cellity, consICA, GRaNIE, mosdef, OmaDB, pcaExplorer, transcriptogramer, ViSEAGO, ExpHunterSuite Suggests Me fenr, FGNet, GeDi, geva, IntramiRExploreR, miRNAtap Links To Me Build Report Build Report Package Archives

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

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