Package picard.sam.markduplicates.util
Class ReadEndsForMarkDuplicatesWithBarcodes
- java.lang.Object
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- picard.sam.util.PhysicalLocationInt
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- picard.sam.util.PhysicalLocationShort
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- picard.sam.markduplicates.util.ReadEnds
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- picard.sam.markduplicates.util.ReadEndsForMarkDuplicates
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- picard.sam.markduplicates.util.ReadEndsForMarkDuplicatesWithBarcodes
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- All Implemented Interfaces:
Serializable
,Cloneable
,PhysicalLocation
public class ReadEndsForMarkDuplicatesWithBarcodes extends ReadEndsForMarkDuplicates
- See Also:
- Serialized Form
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Field Summary
Fields Modifier and Type Field Description int
barcode
int
readOneBarcode
int
readTwoBarcode
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Fields inherited from class picard.sam.markduplicates.util.ReadEndsForMarkDuplicates
duplicateSetSize, read1IndexInFile, read2IndexInFile, score, SIZE_OF
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Fields inherited from class picard.sam.markduplicates.util.ReadEnds
F, FF, FR, isOpticalDuplicate, libraryId, orientation, orientationForOpticalDuplicates, R, read1Coordinate, read1ReferenceIndex, read2Coordinate, read2ReferenceIndex, readGroup, RF, RR
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Fields inherited from class picard.sam.util.PhysicalLocationInt
tile, x, y
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Fields inherited from interface picard.sam.util.PhysicalLocation
NO_VALUE
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Constructor Summary
Constructors Constructor Description ReadEndsForMarkDuplicatesWithBarcodes()
ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicates read)
ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicatesWithBarcodes read)
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Method Summary
All Methods Static Methods Instance Methods Concrete Methods Modifier and Type Method Description ReadEndsForMarkDuplicatesWithBarcodes
clone()
static int
getSizeOf()
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Methods inherited from class picard.sam.markduplicates.util.ReadEndsForMarkDuplicates
isSingleEndReadKnownFragment, toString
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Methods inherited from class picard.sam.markduplicates.util.ReadEnds
getLibraryId, getOrientationByte, getReadGroup, isPaired, setLibraryId, setReadGroup
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Methods inherited from class picard.sam.util.PhysicalLocationShort
setX, setY
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Methods inherited from class picard.sam.util.PhysicalLocationInt
getTile, getX, getY, setTile
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Methods inherited from class java.lang.Object
equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
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Methods inherited from interface picard.sam.util.PhysicalLocation
hasLocation
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Constructor Detail
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ReadEndsForMarkDuplicatesWithBarcodes
public ReadEndsForMarkDuplicatesWithBarcodes()
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ReadEndsForMarkDuplicatesWithBarcodes
public ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicates read)
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ReadEndsForMarkDuplicatesWithBarcodes
public ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicatesWithBarcodes read)
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Method Detail
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clone
public ReadEndsForMarkDuplicatesWithBarcodes clone()
- Overrides:
clone
in classReadEndsForMarkDuplicates
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getSizeOf
public static int getSizeOf()
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