TCR_summary-class       S4 Class for TCR Repertoire Summary
convertToTcrdist        Convert TCR Data to tcrdist3 Format
extractTCRdata          Extract TCR Data from SingleCellExperiment
                        Object
generateOLGA            Generate Random TCR Sequences using OLGA
huggingModel            Initialize a Hugging Face Model and Tokenizer
immLynx_example         Example Single-Cell RNA-seq Data with TCR
                        Information
proteinEmbeddings       Get Protein Embeddings from a Model
runClustTCR             Run clusTCR Clustering on scRepertoire Data
runEmbeddings           Generate Protein Language Model Embeddings for
                        TCR Sequences
runHLAassociation       Perform HLA Association Analysis on Metaclones
runMetaclonotypist      Run Metaclonotypist for TCR Metaclone Discovery
runOLGA                 Calculate Generation Probability (Pgen) for
                        TCRs in scRepertoire Data
runSoNNia               Run soNNia Selection Analysis
runTCRdist              Calculate TCR Distances on scRepertoire Data
summarizeTCRrepertoire
                        Summarize TCR Repertoire Statistics
tokenizeSequences       Tokenize Amino Acid Sequences
validateTCRdata         Validate TCR Data Format
