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Pairwise Hamming distance matrix for CDR3 sequences

Source: R/wrappers_distance.R
hamming_matrix.Rd

Computes an N x N integer matrix of Hamming distances between CDR3 sequences. For pairs of equal length, the distance is the number of mismatches. For pairs of unequal length, the distance is set to the length of the longer sequence (maximum penalty).

Usage

hamming_matrix(cdr3_seqs)

Arguments

cdr3_seqs

Character vector. CDR3 amino acid sequences.

Value

An integer matrix of dimensions N x N.

See also

hamming_distance, tcrdist_matrix

Examples

seqs <- c("CASSI", "CASSK", "CASRL")
hamming_matrix(seqs)
#>      [,1] [,2] [,3]
#> [1,]    0    1    2
#> [2,]    1    0    2
#> [3,]    2    2    0