globaltest

This is the released version of globaltest; for the devel version, see globaltest.

Testing Groups of Covariates/Features for Association with a Response Variable, with Applications to Gene Set Testing

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DOI: 10.18129/B9.bioc.globaltest

Bioconductor version: Release (3.22)

The global test tests groups of covariates (or features) for association with a response variable. This package implements the test with diagnostic plots and multiple testing utilities, along with several functions to facilitate the use of this test for gene set testing of GO and KEGG terms.

Author: Jelle Goeman and Jan Oosting, with contributions by Livio Finos, Aldo Solari, Dominic Edelmann

Maintainer: Jelle Goeman <j.j.goeman at lumc.nl>

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

Installation

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


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

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("globaltest")

Global Test PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Bioinformatics, DifferentialExpression, GO, Microarray, OneChannel, Pathways, Software

Version 5.64.0

In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 20.5 years)

License GPL (>= 2)

Depends methods, survival

Imports Biobase, AnnotationDbi, annotate, graphics

System Requirements

URL

Suggests vsn, golubEsets, KEGGREST, hu6800.db, Rgraphviz, GO.db, lungExpression, org.Hs.eg.db, GSEABase, penalized, gss, MASS, boot, rpart, mstate

Linking To

Enhances

Depends On Me GlobalAncova

Imports Me BiSeq, EGSEA, SIM, miRtest

Suggests Me topGO, GiANT, penalized

Links To Me

Build Report Build Report

Package Archives

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

Source Package globaltest_5.64.0.tar.gz

Windows Binary (x86_64) globaltest_5.64.0.zip

macOS Binary (x86_64) globaltest_5.64.0.tgz

macOS Binary (arm64)

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

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

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

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

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