GeoDE: A geometrical Approach to Differential expression and gene-set enrichment

Given expression data this package calculate a multivariate geometrical characterization of the differential expression and can also perform gene-set enrichment.

AuthorNeil R. Clark and Avi Ma'ayan
Date of publication2014-07-31 07:17:53
MaintainerNeil Clark <neil.clark@mssm.edu>
LicenseGPL-2
Version1.0

View on CRAN

Files

GeoDE
GeoDE/NAMESPACE
GeoDE/data
GeoDE/data/microRNA.gmt.RData
GeoDE/data/Chromosome_location.gmt.RData
GeoDE/data/KEGG_pathways.gmt.RData
GeoDE/data/Cancer_Cell_Line_Encyclopedia.gmt.RData
GeoDE/data/GeneOntology_MF.gmt.RData
GeoDE/data/example_expression_data.RData
GeoDE/data/HMDB_Metabolites.gmt.RData
GeoDE/data/OMIM_disease_genes.gmt.RData
GeoDE/data/NCI60.gmt.RData
GeoDE/data/MGI_MP_top3.gmt.RData
GeoDE/data/OMIM_Expanded.gmt.RData
GeoDE/data/AllGMTfiles.RData
GeoDE/data/Reactome_pathways.gmt.RData
GeoDE/data/PPI_Hub_Proteins.gmt.RData
GeoDE/data/ChEA.gmt.RData
GeoDE/data/GeneOntology_CC.gmt.RData
GeoDE/data/Genome_Browser_PWMs.gmt.RData
GeoDE/data/Pfam-InterPro-domains.gmt.RData
GeoDE/data/NURSA-IPMS.gmt.RData
GeoDE/data/KEA.gmt.RData
GeoDE/data/WikiPathways_pathways.gmt.RData
GeoDE/data/Human_Gene_Atlas.gmt.RData
GeoDE/data/BioCarta_pathways.gmt.RData
GeoDE/data/VirusMINT.gmt.RData
GeoDE/data/CORUM.gmt.RData
GeoDE/data/datalist
GeoDE/data/GeneSigDB.gmt.RData
GeoDE/data/GeneOntology_BP.gmt.RData
GeoDE/data/example_gammas.RData
GeoDE/data/TF_PPIs.gmt.RData
GeoDE/data/MGI_MP_top4.gmt.RData
GeoDE/data/Mouse_Gene_Atlas.gmt.RData
GeoDE/data/example_sampleclass.RData
GeoDE/R
GeoDE/R/ChDir-06.R
GeoDE/MD5
GeoDE/DESCRIPTION
GeoDE/man
GeoDE/man/AllGMTfiles.Rd GeoDE/man/example_gammas.Rd GeoDE/man/GeoDE-package.Rd GeoDE/man/example_sampleclass.Rd GeoDE/man/gmt.Rd GeoDE/man/example_expression_data.Rd GeoDE/man/PAEAAnalysis.Rd GeoDE/man/chdirAnalysis.Rd GeoDE/man/multigmtPAEAAnalysis.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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All documentation is copyright its authors; we didn't write any of that.