phenoTest

Tools to test association between gene expression and phenotype in a way that is efficient, structured, fast and scalable. We also provide tools to do GSEA (Gene set enrichment analysis) and copy number variation.

Bioconductor version: Release (2.12)

Tools to test correlation between gene expression and phenotype in a way that is efficient, structured, fast and scalable. GSEA is also provided.

Author: Evarist Planet

Maintainer: Evarist Planet <evarist.planet at irbbarcelona.org>

To install this package, start R and enter:

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

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

    citation("phenoTest")

Documentation

PDF R Script Manual for the phenoTest library
PDF   Reference Manual

Details

biocViews Bioinformatics, Classification, Clustering, DifferentialExpression, Microarray, MultipleComparisons, Software
Version 1.8.1
In Bioconductor since BioC 2.8 (R-2.13)
License GPL (>=2)
Depends R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA
Imports survival, limma, Hmisc, gplots, Category, AnnotationDbi, hopach, biomaRt, GSEABase, genefilter, xtable, annotate, mgcv, SNPchip, hgu133a.db, HTSanalyzeR
Suggests GSEABase, KEGG.db, GO.db
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source phenoTest_1.8.1.tar.gz
Windows Binary phenoTest_1.8.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) phenoTest_1.8.1.tgz
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center