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
-
public class SnpEffPredictorFactoryGenBank extends SnpEffPredictorFactoryFeatures
This class creates a SnpEffectPredictor from a GenBank file.- Author:
- pcingola
-
-
Field Summary
Fields Modifier and Type Field Description static java.lang.String
EXTENSION_GENBANK
-
Fields inherited from class org.snpeff.snpEffect.factory.SnpEffPredictorFactoryFeatures
OFFSET
-
Fields inherited from class org.snpeff.snpEffect.factory.SnpEffPredictorFactory
MARK, MIN_TOTAL_FRAME_COUNT
-
-
Constructor Summary
Constructors Constructor Description SnpEffPredictorFactoryGenBank(Config config)
SnpEffPredictorFactoryGenBank(Config config, java.lang.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, setCreateRandSequences, setDebug, setFastaFile, setFileName, setRandom, setReadSequences, setStoreSequences, setVerbose, showChromoNamesDifferences
-
-
-
-
Field Detail
-
EXTENSION_GENBANK
public static final java.lang.String EXTENSION_GENBANK
- See Also:
- Constant Field Values
-
-