| .ClinicalModel |
Man page
|
| .CohortList |
Man page
|
| .ConsensusMetaclusteringModel |
Man page
|
| .CoxModel |
Man page
|
| .GeneFuModel |
Man page
|
| .ModelComparison |
Man page
|
| .NCSModel |
Man page
|
| .PCOSP |
Man page
|
| .RGAModel |
Man page
|
| .RLSModel |
Man page
|
| .S4Model |
Man page
|
| .SurvivalExperiment |
Man page
|
| .SurvivalModel |
Man page
|
| .findAllCohortPairs |
Man page
|
| .generateTSPmodels |
Source code
|
| .getExecutionContext |
Source code
|
| .plotNetwork |
Source code
|
| .randomSampleIndex |
Man page
Source code
|
| .randomSampleIndexShuffle |
Source code
|
| CSPC_MAE |
Man page
|
| ClinicalModel |
Man page
Source code
|
| ClinicalModel-class |
Man page
|
| CohortList |
Man page
Source code
|
| CohortList-class |
Man page
|
| ConMetaclustModel |
Man page
|
| ConsensusMetaclusteringModel |
Man page
Source code
|
| ConsensusMetaclusteringModel-class |
Man page
|
| CoxModel |
Man page
Source code
|
| CoxModel-class |
Man page
|
| GeneFuModel |
Man page
Source code
|
| GeneFuModel-class |
Man page
|
| ModelComparison |
Man page
Source code
|
| ModelComparison-class |
Man page
|
| NCSModel |
Man page
|
| NCSModel-class |
Man page
|
| NetworkCommunitySearchModel |
Man page
Source code
|
| PCOSP |
Man page
Source code
|
| PCOSP-class |
Man page
|
| PCOSP_or_ClinicalModel-class |
Man page
|
| PCOSP_or_RLS_or_RGA-class |
Man page
|
| RGAModel |
Man page
|
| RGAModel-class |
Man page
|
| RLSModel |
Man page
|
| RLSModel-class |
Man page
|
| RandomGeneAssignmentModel |
Man page
Source code
|
| RandomLabelShufflingModel |
Man page
Source code
|
| S4Model-class |
Man page
|
| SurvivalExperiment |
Man page
Source code
|
| SurvivalExperiment-class |
Man page
|
| SurvivalModel |
Man page
Source code
|
| SurvivalModel-class |
Man page
|
| assignColDataColumn |
Man page
Source code
|
| assignSubtypes |
Man page
|
| assignSubtypes,CohortList,list-method |
Man page
|
| assignSubtypes,SurvivalExperiment,data.frame-method |
Man page
|
| barPlotModelComparison |
Man page
|
| barPlotModelComparison,ClinicalModel,PCOSP_or_RLS_or_RGA-method |
Man page
|
| birnbaum |
Man page
|
| chen |
Man page
|
| cohortSubtypeDFs |
Man page
|
| compareModels |
Man page
|
| compareModels,ModelComparison,SurvivalModel-method |
Man page
|
| compareModels,SurvivalModel,SurvivalModel-method |
Man page
|
| densityPlotModelComparison |
Man page
|
| densityPlotModelComparison,PCOSP_or_RLS_or_RGA,PCOSP_or_RLS_or_R |
Man page
|
| dropNotCensored |
Man page
|
| dropNotCensored,CohortList-method |
Man page
|
| dropNotCensored,SurvivalExperiment-method |
Man page
|
| error |
Source code
|
| existingClassifierData |
Man page
|
| findCommonGenes |
Man page
|
| findCommonGenes,CohortList-method |
Man page
|
| findCommonGenes,MultiAssayExperiment-method |
Man page
|
| findCommonSamples |
Man page
|
| findCommonSamples,CohortList-method |
Man page
|
| forestPlot |
Man page
|
| forestPlot,ModelComparison-method |
Man page
|
| forestPlot,PCOSP_or_ClinicalModel-method |
Man page
|
| getModelSeed |
Man page
|
| getModelSeed,SurvivalModel-method |
Man page
|
| getTopFeatures |
Man page
|
| getTopFeatures,MultiAssayExperiment-method |
Man page
|
| getTopFeatures,PCOSP-method |
Man page
|
| getTopFeatures,SummarizedExperiment-method |
Man page
|
| haiderSigScores |
Man page
|
| hasColDataColumns |
Man page
Source code
|
| merge,SurvivalExperiment,SurvivalExperiment-method |
Man page
|
| modelParams |
Man page
|
| modelParams,S4Model-method |
Man page
|
| modelParams<- |
Man page
|
| modelParams<-,S4Model,List_or_list_or_NULL-method |
Man page
|
| models |
Man page
|
| models,S4Model-method |
Man page
|
| models,SurvivalModel-method |
Man page
|
| models<- |
Man page
|
| models<-,S4Model,List_or_list_or_NULL-method |
Man page
|
| models<-,SurvivalModel,SimpleList-method |
Man page
|
| normalize,DFrame-method |
Man page
|
| normalize,MultiAssayExperiment-method |
Man page
|
| normalize,SummarizedExperiment-method |
Man page
|
| normalize,data.frame_or_matrix-method |
Man page
|
| normalsMAE |
Man page
|
| optimalKMinimizeAmbiguity |
Man page
Source code
|
| plotNetworkGraph |
Man page
|
| plotNetworkGraph,NCSModel-method |
Man page
|
| plotROC |
Man page
|
| plotROC,PCOSP-method |
Man page
|
| plotSurvivalCurves |
Man page
|
| plotSurvivalCurves,CoxModel-method |
Man page
|
| predictClasses |
Man page
|
| predictClasses,CohortList,ClinicalModel-method |
Man page
|
| predictClasses,CohortList,GeneFuModel-method |
Man page
|
| predictClasses,CohortList,PCOSP_or_RLS_or_RGA-method |
Man page
|
| predictClasses,ConsensusMetaclusteringModel,ANY-method |
Man page
|
| predictClasses,NCSModel,ANY-method |
Man page
|
| predictClasses,SurvivalExperiment,ClinicalModel-method |
Man page
|
| predictClasses,SurvivalExperiment,GeneFuModel-method |
Man page
|
| predictClasses,SurvivalExperiment,PCOSP_or_RLS_or_RGA-method |
Man page
|
| preprocessCaret |
Man page
Source code
|
| rankFeatures |
Man page
|
| rankFeatures,MultiAssayExperiment-method |
Man page
|
| rankFeatures,SummarizedExperiment-method |
Man page
|
| removeColDataFactorColumns |
Man page
Source code
|
| removeFactorColumns |
Man page
Source code
|
| renameColDataColumns |
Man page
Source code
|
| renameColumns |
Man page
Source code
|
| runGSEA |
Man page
|
| runGSEA,PCOSP,data.frame-method |
Man page
|
| sampleClinicalModel |
Man page
|
| sampleCohortList |
Man page
|
| sampleICGCmicro |
Man page
|
| samplePCOSPmodel |
Man page
|
| samplePCOSPpredList |
Man page
|
| samplePCSIsurvExp |
Man page
|
| sampleRGAmodel |
Man page
|
| sampleRLSmodel |
Man page
|
| sampleTrainedPCOSPmodel |
Man page
|
| sampleValPCOSPmodel |
Man page
|
| show,S4Model-method |
Man page
|
| subset,CohortList-method |
Man page
|
| trainData |
Man page
|
| trainData,S4Model-method |
Man page
|
| trainData<- |
Man page
|
| trainData<-,S4Model-method |
Man page
|
| trainModel |
Man page
|
| trainModel,ClinicalModel-method |
Man page
|
| trainModel,ConsensusMetaclusteringModel-method |
Man page
|
| trainModel,CoxModel-method |
Man page
|
| trainModel,GeneFuModel-method |
Man page
|
| trainModel,NCSModel-method |
Man page
|
| trainModel,PCOSP-method |
Man page
|
| trainModel,RGAModel-method |
Man page
|
| trainModel,RLSModel-method |
Man page
|
| validateModel |
Man page
|
| validateModel,ClinicalModel,CohortList-method |
Man page
|
| validateModel,ClinicalModel,SurvivalExperiment-method |
Man page
|
| validateModel,ConsensusMetaclusteringModel,ConsensusMetaclusteri |
Man page
|
| validateModel,GeneFuModel,CohortList-method |
Man page
|
| validateModel,GeneFuModel,SurvivalExperiment-method |
Man page
|
| validateModel,PCOSP_or_RLS_or_RGA,CohortList-method |
Man page
|
| validateModel,PCOSP_or_RLS_or_RGA,SurvivalExperiment-method |
Man page
|
| validationData |
Man page
|
| validationData,S4Model-method |
Man page
|
| validationData,SurvivalModel-method |
Man page
|
| validationData<- |
Man page
|
| validationData<-,S4Model,List_or_list_or_NULL-method |
Man page
|
| validationData<-,SurvivalModel,CohortList-method |
Man page
|
| validationStats |
Man page
|
| validationStats,S4Model-method |
Man page
|
| validationStats,SurvivalModel-method |
Man page
|
| validationStats<- |
Man page
|
| validationStats<-,S4Model,DFrame_or_data.frame_data.table_or_NUL |
Man page
|
| validationStats<-,SurvivalModel,data.frame-method |
Man page
|
