alphagenome.models.variant_scorers.GeneMaskActiveScorer

class alphagenome.models.variant_scorers.GeneMaskActiveScorer(requested_output)

Variant scorer for gene-mask active allele scoring.

Variant scorer that captures absolute activity level associated with one of the alleles, rather than quantifying the difference between the ALT and REF. Active allele gene scores are calculated by taking the maximum of the aggregated ALT and REF signals across exons for a gene of interest.

requested_output

The requested output type (e.g. ATAC, DNASE, etc.)

base_variant_scorer

The base variant scorer.

name

The name of the scorer (a composite of the above attributes that uniquely identifies a scorer combination).

is_signed

Whether this variant scorer is directional (such that scores may be negative or positive) or non-directional (scores are always positive).

to_proto()

Converts the scorer to its corresponding proto message.

Raises:

ValueError – If the requested output is not supported.

Attributes

Table

base_variant_scorer
is_signed
name
requested_output

GeneMaskActiveScorer.base_variant_scorer

GeneMaskActiveScorer.is_signed

GeneMaskActiveScorer.name

GeneMaskActiveScorer.requested_output: OutputType

Methods

Table

to_proto()

GeneMaskActiveScorer.to_proto()

Return type:

VariantScorer