Bioconductor-mirror/mvGST: Multivariate and directional gene set testing

mvGST provides platform-independent tools to identify GO terms (gene sets) that are differentially active (up or down) in multiple contrasts of interest. Given a matrix of one-sided p-values (rows for genes, columns for contrasts), mvGST uses meta-analytic methods to combine p-values for all genes annotated to each gene set, and then classify each gene set as being significantly more active (1), less active (-1), or not significantly differentially active (0) in each contrast of interest. With multiple contrasts of interest, each gene set is assigned to a profile (across contrasts) of differential activity. Tools are also provided for visualizing (in a GO graph) the gene sets classified to a given profile.

Getting started

Package details

AuthorJohn R. Stevens and Dennis S. Mecham
Bioconductor views DifferentialExpression GO GeneSetEnrichment GraphAndNetwork Microarray OneChannel Pathways RNASeq
MaintainerJohn R. Stevens <[email protected]>
LicenseGPL-3
Version1.11.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("Bioconductor-mirror/mvGST")
Bioconductor-mirror/mvGST documentation built on June 1, 2017, 12:48 p.m.