ReadEndsForMarkDuplicatesWithBarcodes (picard 2.18.2 API)

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java.lang.Object
- picard.sam.util.PhysicalLocationInt
- - picard.sam.util.PhysicalLocationShort
  - - picard.sam.markduplicates.util.ReadEnds
    - - picard.sam.markduplicates.util.ReadEndsForMarkDuplicates
      - picard.sam.markduplicates.util.ReadEndsForMarkDuplicatesWithBarcodes

All Implemented Interfaces:: Cloneable, PhysicalLocation

public class ReadEndsForMarkDuplicatesWithBarcodes
extends ReadEndsForMarkDuplicates

Field Summary

Fields
Modifier and Type Field Description

int barcode

int readOneBarcode

int readTwoBarcode
- Fields inherited from interface picard.sam.util.PhysicalLocation
  NO_VALUE
- Fields inherited from class picard.sam.util.PhysicalLocationInt
  tile, x, y
- Fields inherited from class picard.sam.markduplicates.util.ReadEnds
  F, FF, FR, isOpticalDuplicate, libraryId, orientation, orientationForOpticalDuplicates, R, read1Coordinate, read1ReferenceIndex, read2Coordinate, read2ReferenceIndex, readGroup, RF, RR
- Fields inherited from class picard.sam.markduplicates.util.ReadEndsForMarkDuplicates
  duplicateSetSize, read1IndexInFile, read2IndexInFile, score, SIZE_OF

Constructor Summary

Constructors
Constructor	Description
`ReadEndsForMarkDuplicatesWithBarcodes()`
`ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicates read)`
`ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicatesWithBarcodes read)`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type Method Description

ReadEndsForMarkDuplicatesWithBarcodes clone()

static int getSizeOf()
- Methods inherited from class java.lang.Object
  equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
- Methods inherited from interface picard.sam.util.PhysicalLocation
  hasLocation
- Methods inherited from class picard.sam.util.PhysicalLocationInt
  getTile, getX, getY, setTile
- Methods inherited from class picard.sam.util.PhysicalLocationShort
  setX, setY
- Methods inherited from class picard.sam.markduplicates.util.ReadEnds
  getLibraryId, getOrientationByte, getReadGroup, isPaired, setLibraryId, setReadGroup

Field Detail

barcode
```
public int barcode
```

readOneBarcode
```
public int readOneBarcode
```

readTwoBarcode
```
public int readTwoBarcode
```

Constructor Detail

ReadEndsForMarkDuplicatesWithBarcodes

public ReadEndsForMarkDuplicatesWithBarcodes()

ReadEndsForMarkDuplicatesWithBarcodes

public ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicates read)

ReadEndsForMarkDuplicatesWithBarcodes

public ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicatesWithBarcodes read)

Method Detail

clone

public ReadEndsForMarkDuplicatesWithBarcodes clone()

Overrides:: clone in class ReadEndsForMarkDuplicates

getSizeOf
```
public static int getSizeOf()
```

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