API for masato-ogishi/Repitope
Epitope immunogenicity prediction through in silico TCR-peptide contact potential profiling
| Global functions | |
|---|---|
| CPP_AACPMatrix | Man page Source code |
| CPP_FragmentLibrary | Man page Source code |
| ContactPotentialProfiling_AACPMatrix | Man page |
| ContactPotentialProfiling_FragmentLibrary | Man page |
| DataPreparation_EpitopeDataset | Man page |
| DataPreparation_NetMHC | Man page |
| DataPreparation_TCR_FastQDump | Man page |
| DataPreparation_TCR_MiXCR | Man page |
| Dataset_EpitopeDataset | Man page |
| Dataset_TCRDatasets | Man page |
| Dataset_TCRPeptidePairDataset | Man page |
| EpitopePrioritization | Man page Source code |
| Epitope_Import | Man page Source code |
| FastQDump_Script | Man page Source code |
| Feature_Computation | Man page |
| Features | Man page Source code |
| Features_CPP | Man page Source code |
| Features_CorFilter | Man page Source code |
| Features_ExtractFeatures | Man page Source code |
| Features_ExtractParameters | Man page Source code |
| Features_FeatureSelect | Man page Source code |
| Features_IO | Man page |
| Features_Importance | Man page Source code |
| Features_Importance_Reduce | Man page Source code |
| Features_MinimumFeatures | Man page Source code |
| Features_PeptDesc | Man page Source code |
| Features_Preprocess | Man page Source code |
| Features_Preprocessing | Man page |
| Features_sCPP | Man page Source code |
| Immunogenicity | Man page |
| Immunogenicity_Predict | Man page Source code |
| Immunogenicity_Score | Man page Source code |
| Immunogenicity_Score_Cluster | Man page Source code |
| Immunogenicity_SummarizeInternalScores | Man page Source code |
| Immunogenicity_TrainModels | Man page Source code |
| InSilicoMutagenesis | Man page Source code |
| MHCII_Human | Man page |
| MHCII_Human_MinimumFeatureSet | Man page |
| MHCII_Primates | Man page |
| MHCII_Rodents | Man page |
| MHCI_Human | Man page |
| MHCI_Human_MinimumFeatureSet | Man page |
| MHCI_Primates | Man page |
| MHCI_Rodents | Man page |
| MiXCR_CombineClonotypes | Man page Source code |
| MiXCR_Script | Man page Source code |
| NeighborNetwork | Man page |
| NeighborNetwork_Clustering | Man page |
| NetMHC_Import | Man page Source code |
| NetMHC_PeptideExport | Man page Source code |
| NetMHC_Script | Man page Source code |
| Repitope | Man page |
| TCRPeptidePairDataset | Man page |
| TCRSet_Public | Man page |
| Utility_Classifier | Man page |
| Utility_DF | Man page |
| Utility_FastUnique | Man page |
| Utility_ParCor | Man page |
| Utility_Sequence | Man page |
| Utility_VennDiagram | Man page |
| calibPlot | Man page Source code |
| classifierDiagnosticPlots | Man page Source code |
| compressedToDummyDF | Man page |
| compressedToLongFormat | Man page |
| compute_auc | Man page Source code |
| contactFootprintDensityPlot | Man page Source code |
| cumGainPlot | Man page Source code |
| fastUnique | Man page Source code |
| inverseColOrderDFList | Man page Source code |
| multivariateRegressionPlot | Man page Source code |
| multivariateRegressionPrediction | Man page Source code |
| mutate_if_byrow | Man page Source code |
| neighborNetwork | Man page Source code |
| neighborNetwork_Cluster | Man page Source code |
| neighborNetwork_Cluster_Batch | Man page Source code |
| neighborNetwork_Cluster_FeatureDF | Man page Source code |
| neighborNetwork_ConnectedSubGraph | Man page Source code |
| neighborNetwork_ConnectedSubGraphDF | Man page Source code |
| package-Repitope | Man page |
| parCor | Man page Source code |
| prcPlot | Man page Source code |
| readFeatureDFList | Man page Source code |
| rocPlot | Man page Source code |
| saveFeatureDFList | Man page Source code |
| sequenceFilter | Man page Source code |
| sequenceSlidingWindow | Man page Source code |
| sortByMedian | Man page Source code |
| univariateCorrelationAnalysis | Man page Source code |
| univariateCorrelationPlot | Man page Source code |
| univariateFeatureSelect | Man page Source code |
| vennDiagram | Man page Source code |
