API for ncborcherding/scRepertoire
A toolkit for single-cell immune receptor profiling
| Global functions | |
|---|---|
| .ACE | Source code |
| .AIRRExport | Source code |
| .JS_desponds | Source code |
| .JS_dist | Source code |
| .JS_spliced | Source code |
| .PairedExport | Source code |
| .TCRmatchExport | Source code |
| .aa.counter | Source code |
| .assignCT | Source code |
| .bound.input.return | Source code |
| .calculateIndex | Source code |
| .chain.parser | Source code |
| .chao1 | Source code |
| .checkBlanks | Source code |
| .checkContigs | Source code |
| .checkList | Source code |
| .checkSingleObject | Source code |
| .clone.counter | Source code |
| .colorizer | Source code |
| .constructConDfAndParseTCR | Source code |
| .convertClonecall | Source code |
| .cosineCalc | Source code |
| .createBcrEdgeListDf | Source code |
| .data.wrangle | Source code |
| .ddiscgamma | Source code |
| .ddiscgammagpd | Source code |
| .ddiscgpd | Source code |
| .discgammanll | Source code |
| .discgpdnll | Source code |
| .diversityCall | Source code |
| .eval_desponds | Source code |
| .expression2List | Source code |
| .fdiscgamma | Source code |
| .fdiscgammagpd | Source code |
| .fdiscgpd | Source code |
| .filteringMulti | Source code |
| .filteringNA | Source code |
| .generate_unique_aa_motifs | Source code |
| .generate_unique_nt_motifs | Source code |
| .get.coord | Source code |
| .get_clono_bg | Source code |
| .get_clono_bias | Source code |
| .get_distances | Source code |
| .ginisimpson | Source code |
| .grabMeta | Source code |
| .groupList | Source code |
| .invsimpson | Source code |
| .jaccardCalc | Source code |
| .lengthDF | Source code |
| .list.input.return | Source code |
| .lvCompare | Source code |
| .makeGenes | Source code |
| .makingLodes | Source code |
| .modifyBarcodes | Source code |
| .morisitaCalc | Source code |
| .normentropy | Source code |
| .off.the.chain | Source code |
| .ordering.function | Source code |
| .overlapCalc | Source code |
| .padded_strings | Source code |
| .parse10x | Source code |
| .parseAIRR | Source code |
| .parseBD | Source code |
| .parseContigs | Source code |
| .parseDandelion | Source code |
| .parseImmcantation | Source code |
| .parseJSON | Source code |
| .parseMiXCR | Source code |
| .parseOmniscope | Source code |
| .parseParse | Source code |
| .parseTRUST4 | Source code |
| .parseWAT3R | Source code |
| .pdiscgamma | Source code |
| .prepareDataFrame | Source code |
| .qdiscgamma | Source code |
| .qdiscgpd | Source code |
| .rawCalc | Source code |
| .rdiscgamma | Source code |
| .rdiscgpd | Source code |
| .removingMulti | Source code |
| .removingNA | Source code |
| .shannon | Source code |
| .short.check | Source code |
| .theCall | Source code |
| .tokenize_multiple_sequences | Source code |
| .tokenize_sequence | Source code |
| StartracDiversity | Man page Source code |
| addVariable | Man page Source code |
| alluvialClones | Man page Source code |
| autoFullJoin | Source code |
| clonalAbundance | Man page Source code |
| clonalBias | Man page Source code |
| clonalCluster | Man page Source code |
| clonalCompare | Man page Source code |
| clonalDiversity | Man page Source code |
| clonalHomeostasis | Man page Source code |
| clonalLength | Man page Source code |
| clonalNetwork | Man page Source code |
| clonalOccupy | Man page Source code |
| clonalOverlap | Man page Source code |
| clonalOverlay | Man page Source code |
| clonalProportion | Man page Source code |
| clonalQuant | Man page Source code |
| clonalRarefaction | Man page Source code |
| clonalScatter | Man page Source code |
| clonalSizeDistribution | Man page Source code |
| combineBCR | Man page Source code |
| combineExpression | Man page Source code |
| combineTCR | Man page Source code |
| contig_list | Man page |
| createHTOContigList | Man page Source code |
| exportClones | Man page Source code |
| getCirclize | Man page Source code |
| getContigDoubletBarcodes | Source code |
| getContigDoublets | Man page Source code |
| getHighBarcodeMismatchWarning | Source code |
| highlightClones | Man page Source code |
| isListOfNonEmptyDataFrames | Source code |
| is_df_or_list_of_df | Source code |
| is_named_numeric | Source code |
| is_se_object | Source code |
| is_seurat_object | Source code |
| is_seurat_or_se_object | Source code |
| lapplyOnAll | Source code |
| loadContigs | Man page Source code |
| make_screp_seurat_cmd | Source code |
| mini_contig_list | Man page |
| pdiscgpd | Source code |
| percentAA | Man page Source code |
| percentGenes | Man page Source code |
| percentKmer | Man page Source code |
| percentVJ | Man page Source code |
| positionalEntropy | Man page Source code |
| positionalProperty | Man page Source code |
| rcppConstructBarcodeIndex | Source code |
| rcppConstructConDfAndParseTCR | Source code |
| rcppGenerateUniqueNtMotifs | Source code |
| rcppGetAaKmerPercent | Source code |
| rcppGetNtKmerPercent | Source code |
| rcppGetSigSequenceEditDistEdgeListDf | Source code |
| scRep_example | Man page |
| scRepertoire | Man page |
| scRepertoire-package | Man page |
| seurat_extractfield | Source code |
| subsetClones | Man page Source code |
| vizGenes | Man page Source code |
