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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 (3.17)

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 epfl.ch>

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

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("phenoTest")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("phenoTest")
Manual for the phenoTest library PDF R Script
Reference Manual PDF

Details

biocViews Classification, Clustering, DifferentialExpression, Microarray, MultipleComparison, Software
Version 1.48.0
In Bioconductor since BioC 2.8 (R-2.13) (12.5 years)
License GPL (>=2)
Depends R (>= 3.6.0), Biobase, methods, annotate, Heatplus, BMA, ggplot2, Hmisc
Imports survival, limma, gplots, Category, AnnotationDbi, hopach, biomaRt, GSEABase, genefilter, xtable, annotate, mgcv, hgu133a.db, ellipse
Linking To
Suggests GSEABase, GO.db
System Requirements
Enhances parallel, org.Ce.eg.db, org.Mm.eg.db, org.Rn.eg.db, org.Hs.eg.db, org.Dm.eg.db
URL
See More
Depends On Me
Imports Me canceR
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package phenoTest_1.48.0.tar.gz
Windows Binary phenoTest_1.48.0.zip
macOS Binary (x86_64) phenoTest_1.48.0.tgz
macOS Binary (arm64) phenoTest_1.48.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/phenoTest
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/phenoTest
Bioc Package Browser https://code.bioconductor.org/browse/phenoTest/
Package Short Url https://bioconductor.org/packages/phenoTest/
Package Downloads Report Download Stats