Files in Bioconductor-mirror/canceR
A Graphical User Interface for accessing and modeling the Cancer Genomics Data of MSKCC.

.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS
R/.gitignore
R/GSEA.1.0.R R/Match_GeneList_MSigDB.R R/Run.GSEA.1.0.R R/aaa.R R/about.R R/canceR.R R/canceRHelp.R R/canceR_pdf.R R/cbind.na.R R/dialogGeneClassifier.R R/dialogMetOption.R R/dialogMut.R R/dialogOptionCircos.R R/dialogOptionGSEAlm.R R/dialogOptionPhenoTest.R R/dialogPlotOption_SkinCor.R R/dialogSamplingGSEA.R R/dialogSelectFiles_GSEA.R R/dialogSpecificMut.R R/dialogSummary_GSEA.R R/dialoggetGeneListMSigDB.R R/displayInTable.R R/getCases.R R/getCasesGenProfs.R R/getCircos.R R/getClinicData_MultipleCases.R R/getClinicalDataMatrix.R R/getCor_ExpCNAMet.R R/getGCTCLSExample.R R/getGCT_CLSfiles.R R/getGSEAlm_Diseases.R R/getGSEAlm_Variables.R R/getGenProfs.R R/getGeneExpMatrix.R R/getGeneList.R R/getGeneListExample.R R/getGeneListFromMSigDB.R R/getGenesClassifier.R R/getGenesTree_MultipleCases.R R/getGenesTree_SingleCase.R R/getGeneticProfiles.R R/getInTable.R R/getListProfData.R R/getMSigDB.R R/getMSigDBExample.R R/getMSigDBfile.R R/getMegaProfData.R R/getMetDataMultipleGenes.R R/getMutData.R R/getPhenoTest.R R/getProfilesDataMultipleGenes.R R/getProfilesDataSingleGene.R R/getSpecificMut.R R/getSummaryGSEA.R R/getSurvival.R R/getTextWin.R R/geteSet.R R/modalDialog.R R/plotModel.R R/plot_1Gene_2GenProfs.R R/plot_2Genes_1GenProf.R R/rbind.na.R R/setWorkspace.R R/testCheckedCaseGenProf.R README.md
canceR.Rproj
data/Circos.RData
data/ClinicalData.txt
data/GSEA.1.0.R
data/GeneExpMatrix.txt
data/brca_tcga73genes.RData
data/brca_tcgaClassifier223.RData
data/brca_tcgaGSEAlm1021.RData
data/datalist/ClinicalData.txt
data/gbm_tcgaPlotTwoGenProf.RData
data/prad_michPhenoTest1021.RData
data/ucec_tcga_pubGSEA1021.RData
inst/canceR.html
inst/canceR_ind.html
inst/canceRs.html
inst/extdata/GeneList/102.txt
inst/extdata/GeneList/1021.txt
inst/extdata/GeneList/223.txt
inst/extdata/GeneList/73.txt
inst/extdata/GeneList/DNA_damage_Response.txt
inst/extdata/GeneList/Glioblastoma_RTK_Ras_PI3K_AKT_Signaling.txt
inst/extdata/GeneList/INvasion_and_Metastasis.txt
inst/extdata/GeneList/ProstateCancer_AR_and_Steroid_synthesis_enzymes.txt
inst/extdata/GeneList/ProstateCancer_DownRegulated_by_Androgen.txt
inst/extdata/MSigDB/c2.cp.reactome.v4.0.symbols.gmt
inst/extdata/MSigDB/c5.bp.v4.0.symbols.gmt
inst/extdata/gct_cls/Lung_Bost_collapsed_symbols_common_Mich_Bost.gct
inst/extdata/gct_cls/Lung_Boston.cls
inst/index.html
man/ClinicalData.Rd man/GSEA.Analyze.Sets.Rd man/GSEA.ConsPlot.Rd man/GSEA.EnrichmentScore.Rd man/GSEA.EnrichmentScore2.Rd man/GSEA.Gct2Frame.Rd man/GSEA.Gct2Frame2.Rd man/GSEA.GeneRanking.Rd man/GSEA.HeatMapPlot.Rd man/GSEA.HeatMapPlot2.Rd man/GSEA.NormalizeCols.Rd man/GSEA.NormalizeRows.Rd man/GSEA.Rd man/GSEA.ReadClsFile.Rd man/GSEA.Res2Frame.Rd man/GSEA.Threshold.Rd man/GSEA.VarFilter.Rd man/GSEA.write.gct.Rd man/GeneExpMatrix.Rd man/Match_GeneList_MSigDB.Rd man/OLD.GSEA.EnrichmentScore.Rd man/Run.GSEA.Rd man/about.Rd man/canceR.Rd man/canceRHelp.Rd man/canceR_Vignette.Rd man/cbind.na.Rd man/dialogGeneClassifier.Rd man/dialogMetOption.Rd man/dialogMut.Rd man/dialogOptionCircos.Rd man/dialogOptionGSEAlm.Rd man/dialogOptionPhenoTest.Rd man/dialogPlotOption_SkinCor.Rd man/dialogSamplingGSEA.Rd man/dialogSelectFiles_GSEA.Rd man/dialogSpecificMut.Rd man/dialogSummary_GSEA.Rd man/dialoggetGeneListMSigDB.Rd man/displayInTable.Rd man/getCases.Rd man/getCasesGenProfs.Rd man/getCircos.Rd man/getClinicData_MultipleCases.Rd man/getClinicalDataMatrix.Rd man/getCor_ExpCNAMet.Rd man/getGCTCLSExample.Rd man/getGCT_CLSfiles.Rd man/getGSEAlm_Diseases.Rd man/getGSEAlm_Variables.Rd man/getGenProfs.Rd man/getGeneExpMatrix.Rd man/getGeneList.Rd man/getGeneListExample.Rd man/getGeneListFromMSigDB.Rd man/getGenesClassifier.Rd man/getGenesTree_MultipleCases.Rd man/getGenesTree_SingleCase.Rd man/getInTable.Rd man/getListProfData.Rd man/getMSigDB.Rd man/getMSigDBExample.Rd man/getMSigDBfile.Rd man/getMegaProfData.Rd man/getMetDataMultipleGenes.Rd man/getMutData.Rd man/getPhenoTest.Rd man/getProfilesDataMultipleGenes.Rd man/getProfilesDataSingleGene.Rd man/getSpecificMut.Rd man/getSummaryGSEA.Rd man/getSurvival.Rd man/getTextWin.Rd man/geteSet.Rd man/modalDialog.Rd man/myGlobalEnv.Rd man/plotModel.Rd man/plot_1Gene_2GenProfs.Rd man/plot_2Genes_1GenProf.Rd man/rbind.na.Rd man/setWorkspace.Rd man/testCheckedCaseGenProf.Rd tests/testthat.R tests/testthat/test_funs.R
vignettes/.gitignore
vignettes/canceR.Rnw
vignettes/canceR.bib
vignettes/image/BrstPrstGSEAlm.png
vignettes/image/BrstPrstGSEAlm1.jpeg
vignettes/image/BrstPrstGSEAlm2.jpeg
vignettes/image/BrstPrstGSEAlm3.jpeg
vignettes/image/BrstPrstGSEAlm4.jpeg
vignettes/image/Circos.png
vignettes/image/Coxph.png
vignettes/image/GSEA-R.png
vignettes/image/GSEA-R1.jpeg
vignettes/image/GSEA-R2.jpeg
vignettes/image/GSEA-R3.jpeg
vignettes/image/GSEA-R4.jpeg
vignettes/image/GSEA-R5.jpeg
vignettes/image/GSEAgctcls.jpeg
vignettes/image/GSEAgctcls2.jpeg
vignettes/image/GSEAgctcls3.jpeg
vignettes/image/GeneListFromMSigDB.png
vignettes/image/GenePhenoClass1.png
vignettes/image/GenePhenoClass2.png
vignettes/image/GenePhenoClass3.png
vignettes/image/GenesClass.png
vignettes/image/GenesClass1.jpeg
vignettes/image/GenesClass2.jpg
vignettes/image/GenesClass3.jpeg
vignettes/image/GenesClass4.jpeg
vignettes/image/GenesClass5.png
vignettes/image/GenesClass6.jpeg
vignettes/image/GenesPhenoClass1.jpeg
vignettes/image/GenesPhenoClass10.jpeg
vignettes/image/GenesPhenoClass2.jpeg
vignettes/image/GenesPhenoClass3.jpeg
vignettes/image/GenesPhenoClass4.png
vignettes/image/GenesPhenoClass5.jpeg
vignettes/image/GenesPhenoClass6.jpeg
vignettes/image/GenesPhenoClass7.jpeg
vignettes/image/GenesPhenoClass8.jpeg
vignettes/image/GenesPhenoClass9.jpeg
vignettes/image/KM.png
vignettes/image/LungNatureResults.png
vignettes/image/LungNatureResults0.jpeg
vignettes/image/LungNatureResults1.jpeg
vignettes/image/MultipleProfileResult.jpeg
vignettes/image/MultipleProfileResultTree.jpeg
vignettes/image/MultipleProfileResultopen.jpeg
vignettes/image/Mutation.jpeg
vignettes/image/Mutation1.png
vignettes/image/MutationDialog.jpeg
vignettes/image/MutationResult.jpeg
vignettes/image/ProfileDialog.jpeg
vignettes/image/RHcloud.jpeg
vignettes/image/SpecificMutationDialog.jpeg
vignettes/image/breastGSEA-R1.jpeg
vignettes/image/breastGSEA-R2.jpeg
vignettes/image/breastGSEA-R3.jpeg
vignettes/image/breastGSEA.png
vignettes/image/breastGSEAlm2.jpeg
vignettes/image/clinicalData.jpeg
vignettes/image/clinicalData.png
vignettes/image/clinicalDataDialog.png
vignettes/image/dialogCircos.png
vignettes/image/gct_cls.png
vignettes/image/helpMenu.jpeg
vignettes/image/heterogeneous1.jpeg
vignettes/image/mainWindow.png
vignettes/image/methylation.png
vignettes/image/methylationDialog.jpeg
vignettes/image/methylationResult.jpeg
vignettes/image/methylationResult.png
vignettes/image/multipleProfiles.png
vignettes/image/mutation.png
vignettes/image/plot.png
vignettes/image/plot1.jpeg
vignettes/image/plot1.png
vignettes/image/plot2.jpeg
vignettes/image/plot2.jpg
vignettes/image/plot3.jpeg
vignettes/image/pradGSEAlm.png
vignettes/image/pradGSEAlm0.jpeg
vignettes/image/pradGSEAlm1.jpeg
vignettes/image/pradGSEAlm2.jpeg
vignettes/image/pradGSEAlm3.jpeg
vignettes/image/pradGSEAlm4.jpeg
vignettes/image/prad_MichiganResults.png
vignettes/image/prad_MichiganResults0.jpeg
vignettes/image/prad_MichiganResults1.jpeg
vignettes/image/prad_MichiganResults2.jpeg
vignettes/image/prad_broad-2013Results.png
vignettes/image/prad_broad-2013Results0.jpeg
vignettes/image/prad_broad-2013Results1.jpeg
vignettes/image/prad_broad-2013Results2.jpeg
vignettes/image/prad_broad-2013Results3.jpeg
vignettes/image/selectgeneList.png
vignettes/image/setWorkspace.jpeg
vignettes/image/singleProfile.png
vignettes/image/singleProfileCheckBox.jpeg
vignettes/image/singleProfileResult.jpeg
vignettes/image/specificMutation.png
vignettes/image/sradGSEAlm2.jpeg
vignettes/image/stadGSEAlm.png
vignettes/image/stadGSEAlm1.jpeg
vignettes/image/stadGSEAlm10.jpeg
vignettes/image/stadGSEAlm2.jpeg
vignettes/image/stadGSEAlm3.jpeg
vignettes/image/stadGSEAlm4.jpeg
vignettes/image/stadGSEAlm5.jpeg
vignettes/image/stadGSEAlm6.jpeg
vignettes/image/stadGSEAlm7.jpeg
vignettes/image/stadGSEAlm8.jpeg
vignettes/image/stadGSEAlm9.jpeg
vignettes/image/stadGSEAlmCNA.png
vignettes/image/starting.png
vignettes/image/starting.svg
vignettes/image/startingWindow.jpeg
vignettes/image/whichMSigDB.png
vignettes/image/whichMSigDB1.jpeg
vignettes/image/whichMSigDB2.jpeg
vignettes/image/workspace.png
Bioconductor-mirror/canceR documentation built on June 1, 2017, 5:24 a.m.