cellink.tl.external.load_abc_links

cellink.tl.external.load_abc_links(abc_file, tissue=None)

Load ABC model enhancer-gene predictions from the combined all-tissue file.

The actual file in the GCS bucket is AllPredictions.AvgHiC.ABC0.015.minus150.withcolnames.ForABCPaper.txt.gz, a single combined file for all tissues. Per-tissue files do not exist.

Parameters:

• abc_file (str | Path) – Path to the combined ABC predictions file, downloaded by download_sclinker_enhancer_links().

• tissue (str | None (default: None)) – Tissue code to filter to (e.g. "BLD"). If None, returns all rows. Matched against the CellType or equivalent column in the file.

Return type:

DataFrame

Returns:

pd.DataFrame with columns: chr, start, end, TargetGene, CellType, ABC.Score (and others from the predictions file).