Package: gage
Type: Package
Title: Generally Applicable Gene-set Enrichment for Pathway Analysis
Version: 2.2.0
Date: 2011-4-3
Author: Weijun Luo
Maintainer: Weijun Luo <luo_weijun@yahoo.com>
Description: GAGE is a published method for gene set or pathway
        analysis. GAGE is generally applicable independent of
        microarray data attributes including sample sizes, experimental
        designs, microarray platforms, and other types of
        heterogeneity, and consistently achieves superior performance
        over other frequently used methods. In gage package, we provide
        functions for basic GAGE analysis, result processing and
        presentation. We have also built pipeline routines for of
        multiple GAGE analyses in a batch, comparison between parallel
        analyses, and combined analysis of heterogeneous data from
        different sources/studies. In addition, we provide demo
        microarray data and commonly used gene set data based on KEGG
        pathways and GO terms. These funtions and data are also useful
        for gene set analysis using other methods.
biocViews: Pathways, GO, DifferentialExpression, Microarray,
        OneChannel, TwoChannel, RNAseq, DataRepresentation, Genetics,
        Bioinformatics, MultipleComparisons
Depends: graph, multtest
Suggests: gageData, GO.db, GSEABase, KEGG.db, org.Hs.eg.db
License: GPL (>=2.0)
URL: http://www.biomedcentral.com/1471-2105/10/161
Collate: colorpanel.R deComp.R eg2sym.R esset.grp.R essGene.R
        gageComp.R gage-internal.R gagePipe.R gagePrep.R gage.R
        gageSum.R geneData.R greenred.R gs.heatmap.R gs.KSTest.R
        gs.tTest.R gs.zTest.R heatmap2.R heter.gage.R invalid.R odd.R
        pairData.R readExpData.R readList.R rownorm.R sigGeneSet.R
        sym2eg.R vennCounts.R vennDiagram2.R
LazyLoad: yes
Packaged: 2011-04-14 10:33:32 UTC; biocbuild
Built: R 2.13.0; ; 2011-04-14 15:17:02 UTC; windows
