acidgenomes.download_refseq_genome

acidgenomes.download_refseq_genome(organism: str, *, taxonomic_group: str | None = None, genome_build: str | None = None, output_dir: Path | None = None, cache: bool = False) → dict[str, Path]

Download RefSeq genome GFF3 and GTF annotation files.

Parameters:

• organism (str) – Latin organism name, e.g. "Homo sapiens".

• taxonomic_group (str or None) – NCBI taxonomic group (e.g. "vertebrate_mammalian"). Auto-detected from internal mapping if None.

• genome_build (str or None) – RefSeq genome build. Auto-detected if None.

• output_dir (Path or None) – Parent directory for the download. Defaults to the current working directory at call time if None.

• cache (bool) – If True, skip downloading files that already exist.

Returns:

Mapping of file type to local path.

Return type:

dict[str, Path]