Uses of Class
org.snpeff.interval.GffMarker
Packages that use GffMarker
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Uses of GffMarker in org.snpeff.fileIterator
Methods in org.snpeff.fileIterator that return GffMarker -
Uses of GffMarker in org.snpeff.interval
Subclasses of GffMarker in org.snpeff.interval -
Uses of GffMarker in org.snpeff.snpEffect.factory
Methods in org.snpeff.snpEffect.factory with parameters of type GffMarkerModifier and TypeMethodDescriptionprotected ExonSnpEffPredictorFactoryGff.addExon(Transcript tr, GffMarker gffMarker, String exonId) Create a new exonCreate and add a new exonprotected Geneprotected GeneCreate and add a gene based on GffMarkerprotected IntergenicConservedSnpEffPredictorFactoryGff.addIntergenicConserved(GffMarker gffMarker) Add an intergenic conserved regionprotected booleanSnpEffPredictorFactoryGff.addInterval(GffMarker gffMarker) Add interval based on GffMarker dataprotected IntronConservedSnpEffPredictorFactoryGff.addIntronConserved(GffMarker gffMarker) Add an intron conserved regionCreate new UTR3primesCreate UTR5primesprotected ExonSnpEffPredictorFactoryGff.findOrCreateExon(String parentId, GffMarker gffMarker) Find an exon for a given parentIdprotected GeneSnpEffPredictorFactoryGff.findOrCreateGene(GffMarker gffMarker) Find or create a gene based on GffMarkerprotected TranscriptSnpEffPredictorFactoryGff.findOrCreateTranscript(GffMarker gffMarker) Create and add a transcript based on GffMarker