Package org.monarchinitiative.lirical.io.service

Class JannovarFunctionalVariantAnnotatorService

java.lang.Object

org.monarchinitiative.lirical.io.service.JannovarFunctionalVariantAnnotatorService

All Implemented Interfaces:

FunctionalVariantAnnotatorService

public class JannovarFunctionalVariantAnnotatorService
extends Object
implements FunctionalVariantAnnotatorService

Method Summary

Modifier and Type	Method	Description
Optional<FunctionalVariantAnnotator>	getFunctionalAnnotator(GenomeBuild genomeBuild, TranscriptDatabase transcriptDatabase)	Get FunctionalVariantAnnotator for a combination of GenomeBuild and TranscriptDatabase.
static JannovarFunctionalVariantAnnotatorService	of(LiricalDataResolver liricalDataResolver, org.monarchinitiative.phenol.annotations.formats.GeneIdentifiers geneIdentifiers)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details

of

public static JannovarFunctionalVariantAnnotatorService of(LiricalDataResolver liricalDataResolver,
 org.monarchinitiative.phenol.annotations.formats.GeneIdentifiers geneIdentifiers)

getFunctionalAnnotator

public Optional<FunctionalVariantAnnotator> getFunctionalAnnotator(GenomeBuild genomeBuild,
 TranscriptDatabase transcriptDatabase)

Description copied from interface: FunctionalVariantAnnotatorService

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.

Specified by:

getFunctionalAnnotator in interface FunctionalVariantAnnotatorService