score_variants

DnaClient.score_variants(intervals, variants, conditions=None, variant_scorers=(), *, organism=Organism.HOMO_SAPIENS, cell_conditionings=None, cell_condition_names=None, progress_bar=True, max_workers=5)

Generate variant scores for a sequence of variants.

Parameters:

• intervals (Interval | Sequence[Interval]) – DNA interval(s) to make prediction for. If a single interval is provided, then the same interval will be used for all variants.

• variants (Sequence[Variant]) – Sequence of DNA variants to make prediction for.

• conditions (Sequence[ModelCondition | str] | None (default: None)) – Optional sequence of conditions or composite curies to generate the predictions for.

• variant_scorers (Sequence[CenterMaskScorer | ContactMapScorer | GeneMaskLFCScorer | GeneMaskActiveScorer | GeneMaskSplicingScorer | MethylationScorer | PolyadenylationScorer | SpliceJunctionScorer] (default: ())) – Sequence of variant scorers to use for scoring. If no variant scorers are provided, the recommended variant scorers for the organism will be used.

• organism (Organism (default: <Organism.HOMO_SAPIENS: 9606>)) – Organism to use for the prediction.

• cell_conditionings (Sequence[AnnData] | None (default: None)) – Optional sequence of expression conditioning inputs (AnnData).

• cell_condition_names (Sequence[str] | None (default: None)) – Optional sequence of labels for expression conditioning. Must be provided when cell_conditionings is used.

• progress_bar (bool (default: True)) – If True, show a progress bar.

• max_workers (int (default: 5)) – Number of parallel workers to use.

Return type:

list[list[AnnData]]

Returns:

List of AnnData lists corresponding to score_variant outputs for each variant.