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Bioconductor - GOstats (development version)

GOstats

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

Tools for manipulating GO and microarrays

Bioconductor version: Development (3.22)

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")): Installation

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


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

# The following initializes usage of Bioc devel
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 Details biocViews Annotation, GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, MultipleComparison, Pathways, Software Version 2.75.0 In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 20 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 See More 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 Imports Me affycoretools, attract, categoryCompare, GmicR, ideal, miRLAB, pcaExplorer, scTensor, SGCP Suggests Me a4, Category, fastLiquidAssociation, fgga, GSEAlm, interactiveDisplay, MineICA, MLP, qpgraph, RnBeads, safe, maGUI, sand Links To Me Build Report Build Report Package Archives

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

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