Package: mvGST
Type: Package
Title: Multivariate and directional gene set testing
Version: 1.0.0
Date: 2014-10-02
Author: John R. Stevens and Dennis S. Mecham
Maintainer: John R. Stevens <john.r.stevens@usu.edu>
Description: 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.
Depends: R(>= 2.10.0), GO.db, Rgraphviz
Imports: gProfileR, stringr, topGO, GOstats, annotate, AnnotationDbi,
        graph
Suggests: hgu133plus2.db, org.Hs.eg.db
License: GPL-3
biocViews: Microarray, OneChannel, RNASeq, DifferentialExpression, GO,
        Pathways, GeneSetEnrichment, GraphAndNetwork
Packaged: 2014-10-14 04:36:03 UTC; biocbuild
Built: R 3.1.1; ; 2014-10-14 14:37:20 UTC; unix
