globaltest

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

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
Maintainer	Jelle Goeman

To install this package, start R and enter:

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

Documentation

Global Test	PDF	R Script
Global Test (deprecated version 4)	PDF	R Script
Reference Manual

Details

biocViews	Microarray , OneChannel , Bioinformatics , DifferentialExpression , GO , Pathways
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
System Requirements
License	GPL (>= 2)
URL	http://www.msbi.nl/goeman
Depends On Me	GlobalAncova
Imports Me	SIM
Suggests Me	topGO

Package Downloads

Package source	globaltest_5.2.0.tar.gz
Windows 32-bit binary	globaltest_5.2.0.zip
Windows 64-bit binary	globaltest_5.2.0.zip
MacOS X 10.5 (Leopard) binary	globaltest_5.2.0.tgz
Package Downloads Report	Downloads Stats