GOstats

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see GOstats.

Tools for manipulating GO and microarrays


Bioconductor version: 3.6

A set of tools for interacting with GO and microarray data. A variety of basic manipulation tools for graphs, hypothesis testing and other simple calculations.

Author: Robert Gentleman [aut], Seth Falcon [ctb], Robert Castelo [ctb], Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Citation (from within R, enter citation("GOstats")):

Installation

To install this package, start R (version "3.4") and enter:


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

BiocManager::install("GOstats")

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("GOstats")
Hypergeometric tests for less common model organisms PDF R Script
Hypergeometric Tests Using GOstats PDF R Script
Visualizing Data Using GOstats PDF R Script
Reference Manual PDF

Details

biocViews Annotation, GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, MultipleComparison, Pathways, Software
Version 2.44.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 19 years)
License Artistic-2.0
Depends R (>= 2.10), Biobase(>= 1.15.29), Category(>= 2.43.2), graph
Imports methods, stats, stats4, AnnotationDbi(>= 0.0.89), GO.db(>= 1.13.0), RBGL, annotate(>= 1.13.2), AnnotationForge, Rgraphviz
System Requirements
URL
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Suggests hgu95av2.db(>= 1.13.0), ALL, multtest, genefilter, RColorBrewer, xtable, SparseM, GSEABase, geneplotter, org.Hs.eg.db, RUnit, BiocGenerics
Linking To
Enhances
Depends On Me MineICA, RDAVIDWebService
Imports Me affycoretools, attract, categoryCompare, facopy, ideal, MIGSA, mvGST, pcaExplorer, ProCoNA, ReportingTools, systemPipeR
Suggests Me BiocCaseStudies, Category, eisa, fastLiquidAssociation, GSEAlm, HTSanalyzeR, interactiveDisplay, MineICA, miRLAB, MLP, MmPalateMiRNA, oneChannelGUI, phenoDist, qpgraph, RnBeads, safe
Links To Me
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Package Archives

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

Source Package GOstats_2.44.0.tar.gz
Windows Binary GOstats_2.44.0.zip
Mac OS X 10.11 (El Capitan) GOstats_2.44.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GOstats
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GOstats
Package Short Url https://bioconductor.org/packages/GOstats/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.6 Source Archive