Package | Description |
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htsjdk.samtools |
Modifier and Type | Method and Description |
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java.util.Iterator<Bin> |
BinList.iterator()
Gets an iterator over all selected bins.
|
java.util.Iterator<Bin> |
BinningIndexContent.BinList.iterator() |
Modifier and Type | Method and Description |
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int |
Bin.compareTo(Bin other)
Compare two bins to see what ordering they should appear in.
|
boolean |
BinningIndexContent.containsBin(Bin bin)
Does this content have anything in this bin?
|
int |
SRAIndex.getFirstLocusInBin(Bin bin)
Gets the first locus that this bin can index into.
|
int |
BrowseableBAMIndex.getFirstLocusInBin(Bin bin)
Gets the first locus that this bin can index into.
|
int |
AbstractBAMFileIndex.getFirstLocusInBin(Bin bin)
Gets the first locus that this bin can index into.
|
int |
SRAIndex.getLastLocusInBin(Bin bin)
Gets the last locus that this bin can index into.
|
int |
BrowseableBAMIndex.getLastLocusInBin(Bin bin)
Gets the last locus that this bin can index into.
|
int |
AbstractBAMFileIndex.getLastLocusInBin(Bin bin)
Gets the last locus that this bin can index into.
|
int |
SRAIndex.getLevelForBin(Bin bin)
SRA only operates on bins from last level
|
int |
BrowseableBAMIndex.getLevelForBin(Bin bin)
Gets the level associated with the given bin number.
|
int |
AbstractBAMFileIndex.getLevelForBin(Bin bin)
Gets the level associated with the given bin number.
|
BAMFileSpan |
SRAIndex.getSpanOverlapping(Bin bin) |
BAMFileSpan |
BrowseableBAMIndex.getSpanOverlapping(Bin bin)
Perform an overlapping query of all bins bounding the given location.
|
Constructor and Description |
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BinList(Bin[] binArray,
int numberOfNonNullBins) |