ContactPotentialProfiling_AACPMatrix | Amino acid pairwise contact potential (AACP) matrix. |
ContactPotentialProfiling_FragmentLibrary | Generate sequence fragment libraries. |
DataPreparation_EpitopeDataset | Compile epitope datasets retrieved from IEDB and other... |
DataPreparation_NetMHC | Utility functions for NetMHC. |
DataPreparation_TCR_FastQDump | Downloading fastQ files from NCBI Sequence Read Archive... |
DataPreparation_TCR_MiXCR | MiXCR workflow. |
Dataset_EpitopeDataset | Compiled datasets of MHC class I and class II epitopes and... |
Dataset_TCRDatasets | A compiled dataset of human TCR beta CDR3 sequences |
Dataset_TCRPeptidePairDataset | A compiled dataset of human TCR-peptide pairs. |
EpitopePrioritization | Epitope prioritization based on immunogenicity scores and... |
Features | Feature computation. |
Features_ExtractFeatures | Extract features from a list of feature dataframes. |
Features_Importance | Importance-based feature selection. |
Features_IO | Importing and exporting utilities for feature dataframes. |
Features_MinimumFeatures | The minimum set of the most important features. |
Features_Preprocessing | Feature preprocessing. |
Immunogenicity | Immunogenicity score. |
NeighborNetwork | Neighbor network analysis. |
NeighborNetwork_Clustering | Neighbor network clustering analysis. |
Repitope | Repitope: Epitope immunogenicity prediction via TCR-peptide... |
SingleTCRAnalysis | Single TCR-peptide contact potential profiling. |
Utility_Classifier | Utility functions for creating diagnostic plots for binary... |
Utility_DF | Utility functions for data frames. |
Utility_FastUnique | The fastest "unique" function. |
Utility_ParCor | Parallelized correlation matrix computation. |
Utility_Sequence | Utility functions for sequence analysis. |
Utility_VennDiagram | Venn diagram. |
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