cellink.tl.external.read_jaxqtl_results

cellink.tl.external.read_jaxqtl_results(prefix)

Read jaxQTL output file(s).

The installed jaxqtl CLI writes one per-chromosome file per run; the exact name/format has changed across jaxqtl versions (older releases: {prefix}.<chr>.tsv.gz; current releases as of this writing: {prefix}.cis_qtl_pairs.<chr>.<test_method>.parquet, e.g. produced by mode="nominal", test_method="score"). Both are supported here, tried in the order they were introduced, concatenating across all matched per-chromosome files.

Parameters:

prefix (str) – Prefix of the jaxQTL result file(s).

Return type:

DataFrame

Returns:

pd.DataFrame The parsed jaxQTL results, concatenated across chromosomes if the run produced more than one output file.