globaltest

Testing groups of covariates/features for association with a response variable, with applications to gene set testing

Bioconductor version: Release (2.14)

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 and Aldo Solari

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

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("globaltest")

To cite this package in a publication, start R and enter:

    citation("globaltest")

Documentation

PDF R Script Global Test
PDF   Reference Manual

Details

biocViews DifferentialExpression, GO, Microarray, OneChannel, Pathways, Software
Version 5.18.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier
License GPL (>= 2)
Depends methods
Imports Biobase, survival, AnnotationDbi, annotate, multtest, graphics
Suggests vsn, golubEsets, KEGG.db, hu6800.db, Rgraphviz, GO.db, lungExpression, org.Hs.eg.db, annotate, Biobase, survival, GSEABase, penalized, gss, MASS, boot, rpart
System Requirements
URL http://www.msbi.nl/goeman
Depends On Me GlobalAncova
Imports Me BiSeq, SIM
Suggests Me topGO

Package Downloads

Package Source globaltest_5.18.0.tar.gz
Windows Binary globaltest_5.18.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) globaltest_5.18.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

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