htsjdk.samtools.filter

Class WholeReadClippedFilter

java.lang.Object

htsjdk.samtools.filter.WholeReadClippedFilter

All Implemented Interfaces:

SamRecordFilter

public class WholeReadClippedFilter
extends java.lang.Object
implements SamRecordFilter

Filter SAMRecords so that only those that have at least one un-clipped base are returned. $Id$

Constructor Summary

Constructors

Constructor and Description
WholeReadClippedFilter()

Method Summary

Modifier and Type	Method and Description
boolean	filterOut(SAMRecord record) Determines whether a SAMRecord matches this filter
boolean	filterOut(SAMRecord first, SAMRecord second) Determines whether a paired of SAMRecord matches this filter

Methods inherited from class java.lang.Object

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

Constructor Detail

WholeReadClippedFilter

public WholeReadClippedFilter()

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, and should be filtered out, otherwise false

filterOut

public boolean filterOut(SAMRecord first,
                         SAMRecord second)

Determines whether a paired 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