alphagenome.models.variant_scorers.GeneMaskLFCScorer

class alphagenome.models.variant_scorers.GeneMaskLFCScorer(requested_output)

Variant scorer for gene-mask log fold change scoring.

Variant scorer that quantifies impact on overall gene transcript abundance. Calculates the log fold change of gene expression level between ALT and REF alleles using a gene exon mask.

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

GeneMaskLFCScorer.base_variant_scorer

GeneMaskLFCScorer.is_signed

GeneMaskLFCScorer.name

GeneMaskLFCScorer.requested_output: OutputType

Methods

Table

to_proto()

GeneMaskLFCScorer.to_proto()

Return type:

VariantScorer