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.

Installation

To install this package, start R (version "4.4") 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	1.54.0
In Bioconductor since	BioC 2.8 (R-2.13) (13.5 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
System Requirements
URL

See More

Suggests	GSEABase, GO.db
Linking To
Enhances	parallel, org.Ce.eg.db, org.Mm.eg.db, org.Rn.eg.db, org.Hs.eg.db, org.Dm.eg.db
Depends On Me
Imports Me	canceR
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	phenoTest_1.54.0.tar.gz
Windows Binary (x86_64)	phenoTest_1.54.0.zip
macOS Binary (x86_64)	phenoTest_1.54.0.tgz
macOS Binary (arm64)	phenoTest_1.53.0.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