INNER CODE UNIT · Python

pg

antigenomics/vdjtools · python/vdjtools/cli/__init__.py:187

    pg: list[float] = [0.0] * len(seqs)
    groups: dict[bool, list[int]] = {True: [], False: []}
    for i, s in enumerate(seqs):
        if s:
            groups[_is_nt(s) if seq_type == "auto" else (seq_type == "nt")].append(i)
    for is_nt, idx in groups.items():
        if not idx:
            continue
        sub, subv, subj = [seqs[i] for i in idx], [vs[i] for i in idx], [js[i] for i in idx]
        got = (native.pgen_nt_batch(m, sub, subv, subj) if is_nt else
               native.pgen_aa_batch(m, sub, subv, subj, mismatches=mismatches))
        for i, p in zip(idx, got):
            pg[i] = p
    _write(df.with_columns(pl.Series("pgen", pg)), out)


@app.command()
def generate(

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