Package picard.util.IntervalList

Class IntervalListScattererByBaseCount

java.lang.Object
picard.util.IntervalList.IntervalListScattererByBaseCount
All Implemented Interfaces:
IntervalListScatterer
Direct Known Subclasses:
IntervalListScattererWithoutSubdivision, IntervalListScattererWithSubdivision
public abstract class IntervalListScattererByBaseCount extends Object implements IntervalListScatterer
a Baseclass for scatterers that scatter by uniqued base count.

  • Constructor Details

    • IntervalListScattererByBaseCount

      public IntervalListScattererByBaseCount()

  • Method Details

    • intervalWeight

      public long intervalWeight(htsjdk.samtools.util.Interval interval)
      Description copied from interface: IntervalListScatterer
      A method that defines the "weight" of an interval list for the purpose of scattering. The class will attempt to create sublists that all have similar weights.
      Specified by:
      intervalWeight in interface IntervalListScatterer

    • listWeight

      public long listWeight(htsjdk.samtools.util.IntervalList intervalList)
      Description copied from interface: IntervalListScatterer
      A method that defines the "weight" of an interval for the purpose of scattering. The class will attempt to create sublists that all have similar weights. This method need to estimate the change in any sublists weight due to the possible of the provided interval.
      Specified by:
      listWeight in interface IntervalListScatterer

    • deduceIdealSplitWeight

      public int deduceIdealSplitWeight(htsjdk.samtools.util.IntervalList intervalList, int nCount)
      Description copied from interface: IntervalListScatterer
      A method that determines the ideal target "weight" of the output IntervalList.
      Specified by:
      deduceIdealSplitWeight in interface IntervalListScatterer
      Parameters:
      intervalList - the IntervalList that is about to get split
      nCount - the scatter count into which to split intervalList
      Returns:
      The ideal "weight" of the output IntervalList's