GSVA: Gene Set Variation Analysis for microarray and RNA-seq data
Version 1.24.1

Gene Set Variation Analysis (GSVA) is a non-parametric, unsupervised method for estimating variation of gene set enrichment through the samples of a expression data set. GSVA performs a change in coordinate systems, transforming the data from a gene by sample matrix to a gene-set by sample matrix, thereby allowing the evaluation of pathway enrichment for each sample. This new matrix of GSVA enrichment scores facilitates applying standard analytical methods like functional enrichment, survival analysis, clustering, CNV-pathway analysis or cross-tissue pathway analysis, in a pathway-centric manner.

AuthorJustin Guinney [aut, cre], Robert Castelo [aut]
Bioconductor views GeneSetEnrichment Microarray Pathways
Date of publicationNone
MaintainerJustin Guinney <justin.guinney@sagebase.org>
LicenseGPL (>= 2)
Version1.24.1
URL http://www.sagebase.org
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("GSVA")

Popular man pages

computeGeneSetsOverlap: Compute gene-sets overlap
filterGeneSets: Filter gene sets
gsva: Gene Set Variation Analysis
See all...

All man pages Function index File listing

Man pages

computeGeneSetsOverlap: Compute gene-sets overlap
filterGeneSets: Filter gene sets
gsva: Gene Set Variation Analysis

Functions

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/gsva.R
build
build/vignette.rds
cleanup
inst
inst/CITATION
inst/doc
inst/doc/GSVA.R
inst/doc/GSVA.Rnw
inst/doc/GSVA.pdf
inst/extdata
inst/extdata/cache4vignette_leukemia_es.RData
man
man/computeGeneSetsOverlap.Rd
man/filterGeneSets.Rd
man/gsva.Rd
src
src/kernel_estimation.c
src/ks_test.c
src/register_cmethods.c
vignettes
vignettes/GSVA.Rnw
vignettes/GSVA.bib
vignettes/methods.png
GSVA documentation built on May 20, 2017, 9:46 p.m.

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