Package picard.sam

Class MostDistantPrimaryAlignmentSelectionStrategy

java.lang.Object
picard.sam.MostDistantPrimaryAlignmentSelectionStrategy
All Implemented Interfaces:
PrimaryAlignmentSelectionStrategy

public class MostDistantPrimaryAlignmentSelectionStrategy extends Object implements PrimaryAlignmentSelectionStrategy
For a paired-end aligner that aligns each end independently, select the pair of alignments that result in the largest insert size. If such a pair of alignments cannot be found, either because one end is not aligned, or because all alignment pairs are chimeric, then select the best MAPQ for each end independently. The primary alignments are then correlated so that their mate info points to each other, but all non-primary alignments are uncorrelated.
  • Constructor Details

    • MostDistantPrimaryAlignmentSelectionStrategy

      public MostDistantPrimaryAlignmentSelectionStrategy()
  • Method Details