Remove TCRs with short CDR3 loops

This function removes TCR pairs where the CDR3 amino acid segment is short. By defualt, it removes TCRs where CDR3-alpha or CDR3-beta is less than 6 amino acids long.

Usage

filter_short_cdr3s(df, verbose = TRUE, min_aa = 6)

Arguments

df

data frame with paired TCRs

verbose

whether to print number of TCRs removed

min_aa

the minimum number of amino acids allowed for a CDR3 sequence

See also

Other data_processing: TIRTL_process(), add_single_chain_data(), clean_pairs(), combine_bulk_and_paired_data(), filter_duplicate_tcrs(), filter_mait(), filter_nonfunctional_TCRs(), filter_v_alleles(), identify_non_functional_seqs(), identify_paired(), make_tcr_schema(), prep_for_tcrdist(), read_external_bulk(), read_external_paired(), remove_duplicates()