query_variant

query_variant#

AtlasClient.query_variant(variant, *, requested_scorers, ontology_terms=None, gene_ids=None, gene_names=None)[source]#

Returns the scores for a single Variant.

Parameters:

  • variant (Variant) – Variant to query.

  • requested_scorers (Sequence[str]) – Names of the variant scorers to retrieve.

  • ontology_terms (Sequence[OntologyTerm | str] | None (default: None)) – Optional ontology terms (or CURIE strings) used to filter tracks.

  • gene_ids (Sequence[str] | None (default: None)) – Optional Ensembl gene IDs used to filter gene-level scores.

  • gene_names (Sequence[str] | None (default: None)) – Optional gene symbols used to filter gene-level scores.

Return type:

Mapping[str, AnnData]

Returns:

Mapping from scorer name to an AnnData of variant scores, with raw scores in .X, variant and gene metadata in .obs, track metadata in .var, scorer information in .uns and, when available, calibrated scores in the 'quantiles' layer.