Package org.snpeff.snpEffect.factory
Class SnpEffPredictorFactoryGenBank
java.lang.Object
org.snpeff.snpEffect.factory.SnpEffPredictorFactory
org.snpeff.snpEffect.factory.SnpEffPredictorFactoryFeatures
org.snpeff.snpEffect.factory.SnpEffPredictorFactoryGenBank
This class creates a SnpEffectPredictor from a GenBank file.
- Author:
- pcingola
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Field Summary
FieldsFields inherited from class org.snpeff.snpEffect.factory.SnpEffPredictorFactoryFeatures
OFFSET
Fields inherited from class org.snpeff.snpEffect.factory.SnpEffPredictorFactory
MARK, MIN_TOTAL_FRAME_COUNT
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Constructor Summary
ConstructorsConstructorDescriptionSnpEffPredictorFactoryGenBank
(Config config) SnpEffPredictorFactoryGenBank
(Config config, String fileName) -
Method Summary
Methods inherited from class org.snpeff.snpEffect.factory.SnpEffPredictorFactoryFeatures
addFeatures, create, geneId, geneName, getProteinByTrId
Methods inherited from class org.snpeff.snpEffect.factory.SnpEffPredictorFactory
add, add, add, add, add, add, addMarker, addSequences, adjustChromosomes, adjustTranscripts, beforeExonSequences, codingFromCds, collapseZeroLenIntrons, createRandSequences, deleteRedundant, exonsFromCds, exonsFromCds, findGene, findGene, findMarker, findTranscript, findTranscript, getOrCreateChromosome, parsePosition, readExonSequences, replaceTranscript, setCircularCorrectLargeGap, setCreateRandSequences, setDebug, setFastaFile, setFileName, setRandom, setReadSequences, setStoreSequences, setVerbose, showChromoNamesDifferences
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Field Details
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EXTENSION_GENBANK
- See Also:
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Constructor Details
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SnpEffPredictorFactoryGenBank
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SnpEffPredictorFactoryGenBank
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