FunctionalVariantAnnotatorService (LIRICAL 2.2.1-SNAPSHOT API)

All Known Implementing Classes:: JannovarFunctionalVariantAnnotatorService

public interface FunctionalVariantAnnotatorService

FunctionalVariantAnnotatorService knows about FunctionalVariantAnnotators for all genome build and transcript database combinations that have been configured for a given Lirical instance.

Method Summary

Modifier and Type

Method

Description

Optional<FunctionalVariantAnnotator>

getFunctionalAnnotator(GenomeBuild genomeBuild, TranscriptDatabase transcriptDatabase)

Get FunctionalVariantAnnotator for a combination of GenomeBuild and TranscriptDatabase.

Method Details
- getFunctionalAnnotator
  
  Optional<FunctionalVariantAnnotator> getFunctionalAnnotator(GenomeBuild genomeBuild, TranscriptDatabase transcriptDatabase)
  
  Get FunctionalVariantAnnotator for a combination of GenomeBuild and TranscriptDatabase.
  The returned value is empty if LIRICAL resources do not allow configuring the annotator for given combination.