GOstats

This is the development version of GOstats; for the stable release version, see GOstats.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5

Tools for manipulating GO and microarrays

Bioconductor version: Development (3.24)

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 vignettes 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")):

Robert Gentleman. GOstats: Tools for manipulating GO and microarrays. doi:10.18129/B9.bioc.GOstats, R package version 2.79.0, https://bioconductor.org/packages/GOstats.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

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")

How To Use GOstats and Category to do Hypergeometric testing with unsupported model organisms	HTML	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	2.79.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier (> 21.5 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
Imports Me	affycoretools, attract, categoryCompare, GmicR, ideal, miRLAB, netZooR, pcaExplorer, ReportingTools, scTensor
Suggests Me	a4, Category, fastLiquidAssociation, fgga, GSEAlm, maGUI, MLP, qpgraph, RnBeads, safe, sand
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	GOstats_2.79.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)	GOstats_2.79.0.tgz
macOS Binary (sonoma-arm64)	GOstats_2.79.0.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