Constructor Detail

• ClusterData

  public ClusterData​(ReadData... reads)

  Used for testing, reads is set directly with no copying to the input array

• ClusterData

  public ClusterData​(ReadType[] readTypes)

  Creates a ClusterData with one read for each type provided

Method Detail

• toString

  public String toString()

  Overrides:

  toString in class Object

• getTile

  public int getTile()

• setTile

  public void setTile​(int tile)

• tileIsSet

  public boolean tileIsSet()

• getRead

  public ReadData getRead​(int index)

• getNumReads

  public int getNumReads()

• setOrCheckTile

  public void setOrCheckTile​(int tile)

  Either set this value if not already set, or if already set, throw an exception if new value != current value.

• getLane

  public int getLane()

• setLane

  public void setLane​(int lane)

• laneIsSet

  public boolean laneIsSet()

• setOrCheckLane

  public void setOrCheckLane​(int lane)

  Either set this value if not already set, or if already set, throw an exception if new value != current value.

• getX

  public int getX()

• setX

  public void setX​(int x)

• xIsSet

  public boolean xIsSet()

• setOrCheckX

  public void setOrCheckX​(int x)

  Either set this value if not already set, or if already set, throw an exception if new value != current value.

• getY

  public int getY()

• setY

  public void setY​(int y)

• yIsSet

  public boolean yIsSet()

• setOrCheckY

  public void setOrCheckY​(int y)

  Either set this value if not already set, or if already set, throw an exception if new value != current value.

• isPf

  public Boolean isPf()

• setPf

  public void setPf​(boolean pf)

• setOrCheckPf

  public void setOrCheckPf​(boolean pf)

  Either set this value if not already set, or if already set, throw an exception if new value != current value.

• getMatchedBarcode

  public String getMatchedBarcode()

  Returns:

  The barcode matched (not the actual sequence from the read, which may not perfectly match the barcode).

• setMatchedBarcode

  public void setMatchedBarcode​(String matchedBarcode)