public class LinearBAMIndex
extends htsjdk.samtools.AbstractBAMFileIndex
| Constructor and Description |
|---|
LinearBAMIndex(htsjdk.samtools.seekablestream.SeekableStream stream,
htsjdk.samtools.SAMSequenceDictionary dict) |
| Modifier and Type | Method and Description |
|---|---|
htsjdk.samtools.BinList |
getBinsOverlapping(int arg0,
int arg1,
int arg2) |
htsjdk.samtools.LinearIndex |
getLinearIndex(int idx) |
protected htsjdk.samtools.BAMIndexContent |
getQueryResults(int arg0) |
htsjdk.samtools.BAMFileSpan |
getSpanOverlapping(htsjdk.samtools.Bin arg0) |
htsjdk.samtools.BAMFileSpan |
getSpanOverlapping(int arg0,
int arg1,
int arg2) |
close, getFirstBinInLevel, getFirstLocusInBin, getLastLocusInBin, getLevelForBin, getLevelSize, getMaxAddressibleGenomicLocation, getMetaData, getNoCoordinateCount, getNumberOfReferences, getNumIndexLevels, getStartOfLastLinearBin, optimizeChunkList, query, regionToBinsclone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, waitpublic LinearBAMIndex(htsjdk.samtools.seekablestream.SeekableStream stream,
htsjdk.samtools.SAMSequenceDictionary dict)
public htsjdk.samtools.LinearIndex getLinearIndex(int idx)
public htsjdk.samtools.BAMFileSpan getSpanOverlapping(int arg0,
int arg1,
int arg2)
getSpanOverlapping in interface htsjdk.samtools.BAMIndexpublic htsjdk.samtools.BinList getBinsOverlapping(int arg0,
int arg1,
int arg2)
getBinsOverlapping in interface htsjdk.samtools.BrowseableBAMIndexpublic htsjdk.samtools.BAMFileSpan getSpanOverlapping(htsjdk.samtools.Bin arg0)
getSpanOverlapping in interface htsjdk.samtools.BrowseableBAMIndexprotected htsjdk.samtools.BAMIndexContent getQueryResults(int arg0)
getQueryResults in class htsjdk.samtools.AbstractBAMFileIndexCopyright © 2017. All rights reserved.