Class 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 Detail

      • SolexaNoiseFilter

        public SolexaNoiseFilter()
    • Method Detail

      • 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