API for broadinstitute/ImagingAMARETTO
ImagingAMARETTO: tools for interpreting multi-omics networks for relevance to clinical outcomes and radiographic and histopathology imaging-derived biomarkers
| Global functions | |
|---|---|
| AMARETTO_CreateModuleData | Man page Source code |
| AMARETTO_CreateRegulatorPrograms | Man page Source code |
| AMARETTO_Download | Man page Source code |
| AMARETTO_EvaluateTestSet | Man page Source code |
| AMARETTO_ExportResults | Man page Source code |
| AMARETTO_HTMLCharacterisation | Man page Source code |
| AMARETTO_HTMLreport | Man page Source code |
| AMARETTO_Initialize | Man page Source code |
| AMARETTO_LarsenBased | Man page Source code |
| AMARETTO_LearnRegulatoryProgramsLarsen | Man page Source code |
| AMARETTO_Preprocess | Man page Source code |
| AMARETTO_ReassignGenesToClusters | Man page Source code |
| AMARETTO_Run | Man page Source code |
| AMARETTO_VisualizeModule | Man page Source code |
| AMARETTO_statistical_test | Man page Source code |
| AMARETTO_unite_results | Man page Source code |
| AMARETTOinit_all | Man page |
| AMARETTOresults_all | Man page |
| BatchData | Man page |
| Beta.NA | Man page Source code |
| ComBat_NoFiles | Man page Source code |
| ComRunModGenInfo | Man page Source code |
| CommunityHyperLink | Man page Source code |
| CommunityModuleTableCreate | Man page Source code |
| CreateHyperGeoTestAll | Man page Source code |
| CreatePhenotypeTable | Man page Source code |
| CreateRegulatorData | Man page Source code |
| Driver_Genes | Man page |
| DriversSharedTbl | Man page Source code |
| ExtractGenesInfo | Man page Source code |
| Extract_Genes_Modules_All | Man page Source code |
| FindTranscriptionallyPredictive_CNV | Man page Source code |
| GmtFromModules | Man page Source code Source code |
| HGTGeneEnrichmentList | Man page Source code |
| HyperGTestGeneEnrichment | Man page Source code Source code |
| HyperGeoEnrichmentTest | Man page Source code |
| InitialCheckInputs | Man page Source code |
| L | Man page Source code |
| Lambda_Sequence | Man page Source code |
| ModuleHyperLink | Man page Source code |
| MsigdbMapping | Man page |
| Preprocess_MAdata | Man page Source code |
| ProcessedDataCCLE | Man page |
| ProcessedDataLIHC | Man page |
| ProcessedDataTCGA | Man page |
| RunHyperLink | Man page Source code |
| Save_CancerSite | Man page Source code |
| TCGA_BatchCorrection_MolecularData | Man page Source code |
| TCGA_GENERIC_BatchCorrection | Man page Source code |
| TCGA_GENERIC_CheckBatchEffect | Man page Source code |
| TCGA_GENERIC_CleanUpSampleNames | Man page Source code |
| TCGA_GENERIC_GetSampleGroups | Man page Source code |
| TCGA_GENERIC_MergeData | Man page Source code |
| TCGA_Load_GISTICdata | Man page Source code |
| TCGA_Load_MolecularData | Man page Source code |
| all_module_KRUSKALWALLIS_test | Man page Source code |
| all_module_TIMESERIESEDGE_test | Man page Source code |
| all_module_WILCOXONRANKSUMPAIRED_test | Man page Source code |
| all_module_WILCOXONRANKSUM_test | Man page Source code |
| all_modules_PEARSONCOR_test | Man page Source code |
| all_modules_SPEARMANCOR_test | Man page Source code |
| all_modules_cox_prop_hazard_test | Man page Source code |
| aprior | Man page Source code |
| bprior | Man page Source code |
| build.design | Man page Source code |
| cAMARETTO_ColorOneModule | Man page Source code |
| cAMARETTO_ExportResults | Man page Source code |
| cAMARETTO_HTML_Read | Man page Source code |
| cAMARETTO_HTMLreport | Man page Source code |
| cAMARETTO_IdentifyCom | Man page Source code |
| cAMARETTO_InformationTable | Man page Source code |
| cAMARETTO_ModuleNetwork | Man page Source code |
| cAMARETTO_Read | Man page Source code |
| cAMARETTO_Results | Man page Source code |
| cAMARETTO_heatmap | Man page Source code |
| cacheResource | Man page Source code |
| computeGisticURL | Man page Source code |
| cox_prop_hazard_test | Man page Source code |
| create_feature_matrix | Man page Source code |
| create_hgt_datatable | Man page Source code |
| create_hgt_datatableC | Man page Source code |
| design.mat | Man page Source code |
| filter.absent | Man page Source code |
| geneFiltering | Man page Source code |
| get_firehoseData | Man page Source code |
| int.eprior | Man page Source code |
| it.sol | Man page Source code |
| list.batch | Man page Source code |
| plot_run_history | Man page Source code |
| postmean | Man page Source code |
| postvar | Man page Source code |
| printf | Man page Source code |
| readGMT | Man page Source code Source code |
| read_gct | Man page Source code |
| trim.dat | Man page Source code |
| write_gct | Man page Source code |
