To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("topGO")

In most cases, you don't need to download the package archive at all.

topGO

DOI: 10.18129/B9.bioc.topGO

Enrichment Analysis for Gene Ontology

Bioconductor version: Release (3.5)

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 and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("topGO")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("topGO")

PDF R Script topGO

PDF Reference Manual

Details

biocViews Microarray, Software, Visualization

Version 2.28.0

In Bioconductor since BioC 2.0 (R-2.5) (10.5 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

LinkingTo

Suggests ALL, hgu95av2.db, hgu133a.db, genefilter, xtable, multtest, Rgraphviz, globaltest

SystemRequirements

Enhances

URL

Depends On Me BgeeDB, ccTutorial, cellTree, compEpiTools, EGSEA, ideal, RCAS, RNAither, tRanslatome

Imports Me cellity, EnrichmentBrowser, GOSim, mvGST, pcaExplorer, psygenet2r, SEPA

Suggests Me clusterProfiler, FGNet, miRNAtap, Ringo

Build Report