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This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see GSVA.

Gene Set Variation Analysis

Bioconductor version: 2.8

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. Users on all platforms must install the GNU Scientific Library; see the README file, available in the source distribution of this file, for details.

Author: Justin Guinney <justin.guinney at> (with contributions from Robert Castelo <robert.castelo at> and Sonja Haenzelmann

Maintainer: Justin Guinney <justin.guinney at>

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biocViews Bioinformatics, Microarray, Pathways, Software
Version 1.0.1
In Bioconductor since BioC 2.8 (R-2.13) (5 years)
License GPL (>= 2)
Depends R (>= 2.13.0), methods
Imports methods, Biobase, GSEABase
Suggests limma, qpgraph, graph, Rgraphviz, RColorBrewer, genefilter, GSVAdata
SystemRequirements GNU Scientific Library >= 1.12
Enhances snow, multicore
Depends On Me
Imports Me
Suggests Me
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