| gsva {GSVA} | R Documentation |
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.
main function of the package which estimates activity
scores For Each given gene-Set
gsva(expr, geneSet,
env = NULL);Hänzelmann S., Castelo R. and Guinney J. GSVA: gene set variation analysis for microarray and RNA-Seq data. BMC Bioinformatics, 14:7, 2013.