# GSVA: gene set variation analysis for microarray and RNA-seq data
 

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 The `GSVA` package allows one to perform a change in coordinate systems of molecular measurements, 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 such as functional enrichment, survival analysis, clustering, CNV-pathway analysis or cross-tissue pathway analysis, in a pathway-centric manner. For citing `GSVA` as a software package, please use the following reference:

 
   Hänzelmann S., Castelo R. and Guinney J. GSVA: gene set variation analysis for microarray and RNA-Seq data. BMC _Bioinformatics_, 14:7, 2013.
 

 ## Installation
 

 This is the __development__ version of the R/Bioconductor package GSVA. This version is unstable and should be used only to test new features. If you are looking for the __release__ version of this package please go to its package release landing page at [https://bioconductor.org/packages/GSVA](https://bioconductor.org/packages/GSVA) and follow the instructions there to install it.

 
 If you were really looking for this development version, then to install it you

 need first to install the development version of R that you can find at [https://cran.r-project.org](https://cran.r-project.org) and then type the following instructions from the R shell:

 
 ```r

 install.packages("BiocManager")

 BiocManager::install("GSVA", version = "devel")

 ```
 
 Alternatively, you can install it from GitHub using the [devtools](https://github.com/hadley/devtools "devtools") package.
 
 ```r
 install.packages("devtools")
 library(devtools)
 install_github("rcastelo/GSVA")
 ```
 
 ## Questions, bug reports and issues
 
 For questions and bug reports regarding the __release__ version of **GSVA**

 please use the [Bioconductor support site](https://support.bioconductor.org "Bioconductor support site").

 For bug reports and issues regarding this __development__ version of **GSVA**
 please use the GitHub issues link at the top-right of this page
 ([https://github.com/rcastelo/GSVA/issues](https://github.com/rcastelo/GSVA/issues)).