Package htsjdk.samtools.reference

Class SamLocusAndReferenceIterator.SAMLocusAndReference

java.lang.Object

htsjdk.samtools.reference.SamLocusAndReferenceIterator.SAMLocusAndReference

Enclosing class:

SamLocusAndReferenceIterator

public static class SamLocusAndReferenceIterator.SAMLocusAndReference
extends Object

Small class to hold together a SamLocusIterator.LocusInfo and the reference base over that locus.

Constructor Summary

Constructors

Constructor	Description
SAMLocusAndReference(SamLocusIterator.LocusInfo locus, byte referenceBase)

Method Summary

Modifier and Type	Method	Description
SamLocusIterator.LocusInfo	getLocus()
List<SamLocusIterator.RecordAndOffset>	getRecordAndOffsets()	Getter
byte	getReferenceBase()

Methods inherited from class java.lang.Object

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

Constructor Details

SAMLocusAndReference

public SAMLocusAndReference(SamLocusIterator.LocusInfo locus,
 byte referenceBase)

Method Details

getLocus

public SamLocusIterator.LocusInfo getLocus()

getReferenceBase

public byte getReferenceBase()

getRecordAndOffsets

public List<SamLocusIterator.RecordAndOffset> getRecordAndOffsets()

Getter

Returns:

The SamLocusIterator.RecordAndOffset that overlap this locus. Extracted from the SamLocusIterator.LocusInfo.