GSVA

Package: GSVA
Version: 1.20.0
Title: Gene Set Variation Analysis for microarray and RNA-seq data
Author: Justin Guinney with contributions from Robert Castelo
Maintainer: Justin Guinney <justin.guinney@sagebase.org>
Depends: R (>= 2.13.0)
Imports: methods, BiocGenerics, Biobase, GSEABase (>= 1.17.4)
Suggests: limma, RColorBrewer, genefilter, mclust, edgeR, snow,
parallel, GSVAdata
Description: 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.
License: GPL (>= 2)
LazyLoad: yes
biocViews: Microarray, Pathways, GeneSetEnrichment
URL: http://www.sagebase.org
Encoding: latin1
NeedsCompilation: yes
Packaged: 2016-05-04 04:11:27 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'GSVA' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c kernel_estimation.c -o kernel_estimation.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c ks_test.c -o ks_test.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c register_cmethods.c -o register_cmethods.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o GSVA.so kernel_estimation.o ks_test.o register_cmethods.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/GSVA/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'GSVA'
    finding HTML links ... done
    computeGeneSetsOverlap                  html  
    filterGeneSets                          html  
    gsva                                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GSVA)
Making 'packages.html' ... done