Package htsjdk.samtools.filter

Class SolexaNoiseFilter

java.lang.Object
htsjdk.samtools.filter.SolexaNoiseFilter
All Implemented Interfaces:
SamRecordFilter
public class SolexaNoiseFilter extends Object implements SamRecordFilter
Filter to determine whether a read is "noisy" due to a poly-A run that is a sequencing artifact. Currently we filter out only reads that are composed entirely of As. $Id$

  • Constructor Details

    • SolexaNoiseFilter

      public SolexaNoiseFilter()

  • Method Details

    • filterOut

      public boolean filterOut(SAMRecord record)
      Determines whether a SAMRecord matches this filter
      Specified by:
      filterOut in interface SamRecordFilter
      Parameters:
      record - the SAMRecord to evaluate
      Returns:
      true if the SAMRecord matches the filter, otherwise false

    • filterOut

      public boolean filterOut(SAMRecord first, SAMRecord second)
      Determines whether a pair of SAMRecord matches this filter
      Specified by:
      filterOut in interface SamRecordFilter
      Parameters:
      first - the first SAMRecord to evaluate
      second - the second SAMRecord to evaluate
      Returns:
      true if the SAMRecords matches the filter, otherwise false