Package htsjdk.samtools.sra
Class SRAUnalignmentIterator
java.lang.Object
htsjdk.samtools.sra.SRAUnalignmentIterator
Iterator for unaligned reads.
Is used from SRAIterator.
Created by andrii.nikitiuk on 9/3/15.
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Constructor Summary
ConstructorsConstructorDescriptionSRAUnalignmentIterator(SRAAccession accession, ngs.ReadCollection run, SAMFileHeader header, SRAIterator.RecordRangeInfo recordRangeInfo, Chunk chunk) -
Method Summary
Modifier and TypeMethodDescriptionbooleanhasNext()next()voidremove()voidsetValidationStringency(ValidationStringency validationStringency) Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, waitMethods inherited from interface java.util.Iterator
forEachRemaining
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Constructor Details
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SRAUnalignmentIterator
public SRAUnalignmentIterator(SRAAccession accession, ngs.ReadCollection run, SAMFileHeader header, SRAIterator.RecordRangeInfo recordRangeInfo, Chunk chunk) - Parameters:
run- opened read collectionheader- sam headerrecordRangeInfo- info about record ranges withing SRA archivechunk- used to determine which unaligned reads the iterator should return
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Method Details