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 (2.14)

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")

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

Documentation

PDF R Script Manual for the phenoTest library
PDF   Reference Manual

Details

biocViews Classification, Clustering, DifferentialExpression, Microarray, MultipleComparison, Software
Version 1.12.0
In Bioconductor since BioC 2.8 (R-2.13)
License GPL (>=2)
Depends R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA, ggplot2, gridExtra
Imports survival, limma, Hmisc, gplots, Category, AnnotationDbi, hopach, biomaRt, GSEABase, genefilter, xtable, annotate, mgcv, SNPchip, hgu133a.db, HTSanalyzeR, ellipse
Suggests GSEABase, KEGG.db, GO.db
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source phenoTest_1.12.0.tar.gz
Windows Binary phenoTest_1.12.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) phenoTest_1.12.0.tgz
Mac OS X 10.9 (Mavericks) phenoTest_1.12.0.tgz
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