Files in broadinstitute/CommunityAMARETTO
CommunityAMARETTO: A Computational Tool for the Discovery of Shared and Distinct Regulatory Mechanisms Across Biological Systems
.DS_Store
.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/cAMARETTO_ColorOneModule.R
R/cAMARETTO_DataReadDownload.R
R/cAMARETTO_HTMLreport.R
R/cAMARETTO_InformationTable.R
R/cAMARETTO_Results.R
R/cAMARETTO_heatmap.R
R/cAMARETTO_identifycom.R
R/cAMARETTO_modulenetwork.R
R/data.R
R/globals.R
README.md
data/CCLE_Liver_data.rda
data/MsigdbMapping.rda
data/TCGA_LIHC_data.rda
data/scHBV_data.rda
data/scHCV_data.rda
inst/TemplateIndexPage_GenesetsEnrichment.Rmd
inst/extdata/CommunityAMARETTO_logo.png
inst/extdata/CommunityAMARETTO_logo2.png
inst/extdata/CommunityAMARETTO_logoBW.png
inst/extdata/Samples_LIHC_phenotypes.txt
inst/extdata/Samples_LIHC_statistics.txt
inst/extdata/ciberSort.gmt
inst/extdata/h.all.v6.2.symbols.gmt
inst/extdata/sample_genesets.gmt
inst/templates/TemplateIndexPage.Rmd
inst/templates/TemplateIndexPage_AllCommunities.Rmd
inst/templates/TemplateIndexPage_AllGenes.Rmd
inst/templates/TemplateIndexPage_Drivers.Rmd
inst/templates/TemplateIndexPage_Drivers2.Rmd
inst/templates/TemplateIndexPage_GenesetsEnrichment.Rmd
inst/templates/TemplateIndexPage_GenesetsEnrichment_cp.Rmd
inst/templates/TemplateIndexPage_GenesetsEnrichment_gp.Rmd
inst/templates/TemplateIndexPage_PhenoAssociation.Rmd
inst/templates/TemplateIndexPage_RunsInfo.Rmd
inst/templates/_site.yml
inst/templates/community_page_template/TemplateCommunityPage.Rmd
inst/templates/community_page_template/_site.yml
man/CCLE_Liver_data.Rd
man/ComRunModGenInfo.Rd
man/CommunityHyperLink.Rd
man/CommunityModuleTableCreate.Rd
man/CreateHyperGeoTestAll.Rd
man/CreatePhenotypeTable.Rd
man/DriversSharedTbl.Rd
man/ExtractGenesInfo.Rd
man/Extract_Genes_Modules_All.Rd
man/GmtFromModules.Rd
man/HGTGeneEnrichmentList.Rd
man/HyperGTestGeneEnrichment.Rd
man/InitialCheckInputs.Rd
man/ModuleHyperLink.Rd
man/MsigdbMapping.Rd
man/RunHyperLink.Rd
man/TCGA_LIHC_data.Rd
man/cAMARETTO_ColorOneModule.Rd
man/cAMARETTO_ExportResults.Rd
man/cAMARETTO_HTML_Read.Rd
man/cAMARETTO_HTMLreport.Rd
man/cAMARETTO_IdentifyCom.Rd
man/cAMARETTO_InformationTable.Rd
man/cAMARETTO_ModuleNetwork.Rd
man/cAMARETTO_Read.Rd
man/cAMARETTO_Results.Rd
man/cAMARETTO_heatmap.Rd
man/create_hgt_datatable.Rd
man/drivers_communities_summary.Rd
man/readGMT.Rd
man/scHBV_data.Rd
man/scHCV_data.Rd
src/.gitignore
tests/testthat.R
tests/testthat/test_cAMARETTO.R
vignettes/.gitignore
