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Expand file tree Collapse file tree Original file line number Diff line number Diff line change @@ -1188,11 +1188,12 @@ class TCRdistDistanceCalculator(_MetricDistanceCalculator):
11881188 base_matrix:
11891189 Amino acid distance matrix used by TCRdist. `"blosum62"` uses the original
11901190 BLOSUM62-derived TCRdist distance matrix, while `"tcrblosum"` uses
1191- TCRBLOSUM-derived matrices.
1191+ TCRBLOSUM-derived matrices. Depending on `chain_type`, either the
1192+ TCRBLOSUM alpha- or beta-chain matrix is used.
11921193 chain_type:
1193- Required when `base_matrix="tcrblosum"` and calling `sequence_dist`.
1194- `"VJ "` selects the alpha -chain matrix and `"VDJ"` selects the beta-chain matrix.
1195- In `ir_dist`, this value is set automatically and should not be provided.
1194+ Required when `base_matrix="tcrblosum"`. `"VJ"` selects the alpha-chain matrix
1195+ and `"VDJ "` selects the beta -chain matrix. When called via `ir_dist`, this value
1196+ is set automatically and should not be provided.
11961197 """
11971198
11981199 parasail_aa_alphabet = "ARNDCQEGHILKMFPSTWYVBZX"
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