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

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: 2.13

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>

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("phenoTest")

 

PDF	R Script	Manual for the phenoTest library
PDF		Reference Manual

Details

biocViews	Bioinformatics, Classification, Clustering, DifferentialExpression, Microarray, MultipleComparisons, Software
Version	1.10.0
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 Archives

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

Package Source	phenoTest_1.10.0.tar.gz
Windows Binary	phenoTest_1.10.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	phenoTest_1.10.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats