picard.filter

Class CountingMapQFilter

java.lang.Object

picard.filter.CountingFilter

picard.filter.CountingMapQFilter

All Implemented Interfaces:

htsjdk.samtools.filter.SamRecordFilter

public class CountingMapQFilter
extends CountingFilter

Counting filter that discards reads below a configurable mapping quality threshold.

Constructor Summary

Constructors

Constructor and Description
CountingMapQFilter(int minMapq)

Method Summary

Modifier and Type	Method and Description
boolean	reallyFilterOut(htsjdk.samtools.SAMRecord record) Return true if we are to filter this record out, false otherwise.

Methods inherited from class picard.filter.CountingFilter

filterOut, filterOut, getFilteredBases, getFilteredRecords

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

CountingMapQFilter

public CountingMapQFilter(int minMapq)

Method Detail

reallyFilterOut

public boolean reallyFilterOut(htsjdk.samtools.SAMRecord record)

Description copied from class: CountingFilter

Return true if we are to filter this record out, false otherwise.

Specified by:

reallyFilterOut in class CountingFilter