public class IntervalKeepPairFilter extends java.lang.Object implements SamRecordFilter
Constructor and Description |
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IntervalKeepPairFilter(java.util.List<Interval> intervals)
Prepare to filter out SAMRecords that do not overlap the given list of
intervals
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Modifier and Type | Method and Description |
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boolean |
filterOut(SAMRecord record)
Determines whether a SAMRecord matches this filter.
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boolean |
filterOut(SAMRecord first,
SAMRecord second)
Determines whether a pair of SAMRecord matches this filter
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public IntervalKeepPairFilter(java.util.List<Interval> intervals)
intervals
- public boolean filterOut(SAMRecord record)
IntervalFilter
if you want to keep these reads, but NOTE: the
resulting bam may not be valid.filterOut
in interface SamRecordFilter
record
- the SAMRecord to evaluatepublic boolean filterOut(SAMRecord first, SAMRecord second)
filterOut
in interface SamRecordFilter
first
- the first SAMRecord to evaluatesecond
- the second SAMRecord to evaluate