GOstats

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see GOstats.

Tools for manipulating GO and microarrays

Bioconductor version: 3.17

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], Sonali Kumari [ctb] (Converted GOvis vignette from Sweave to R Markdown / HTML.), Dennis Ndubi [ctb] (Converted GOstatsHyperG vignette from Sweave to R Markdown / HTML.), 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 "4.3") 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 HTML R Script

Visualizing and Distances Using GO HTML R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Annotation, GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, MultipleComparison, Pathways, Software

Version 2.66.0

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

Suggests hgu95av2.db(>= 1.13.0), ALL, multtest, genefilter, RColorBrewer, xtable, SparseM, GSEABase, geneplotter, org.Hs.eg.db, RUnit, BiocGenerics, BiocStyle, knitr

Linking To

Enhances

Depends On Me MineICA, PloGO2

Imports Me affycoretools, attract, categoryCompare, GmicR, ideal, MIGSA, miRLAB, netZooR, pcaExplorer, ReportingTools, scTensor, SGCP

Suggests Me a4, Category, fastLiquidAssociation, fgga, GSEAlm, interactiveDisplay, MineICA, MLP, qpgraph, RnBeads, safe

Links To Me

Build Report Build Report

Package Archives

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

Source Package GOstats_2.66.0.tar.gz

Windows Binary GOstats_2.66.0.zip

macOS Binary (x86_64) GOstats_2.66.0.tgz

macOS Binary (arm64) GOstats_2.66.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/GOstats

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GOstats

Bioc Package Browser https://code.bioconductor.org/browse/GOstats/

Package Short Url https://bioconductor.org/packages/GOstats/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.17 Source Archive