Package picard.util
Class QuerySortedReadPairIteratorUtil
java.lang.Object
picard.util.QuerySortedReadPairIteratorUtil
A collection of helper utilities for iterating through reads that are in query-name sorted
read order as pairs
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Nested Class Summary
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptiongetNextReadPair
(htsjdk.samtools.util.PeekableIterator<htsjdk.samtools.SAMRecord> iterator) Get the next read pair (where both have the same read name).
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Constructor Details
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QuerySortedReadPairIteratorUtil
public QuerySortedReadPairIteratorUtil()
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Method Details
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getNextReadPair
public static QuerySortedReadPairIteratorUtil.ReadPair getNextReadPair(htsjdk.samtools.util.PeekableIterator<htsjdk.samtools.SAMRecord> iterator) Get the next read pair (where both have the same read name). If we encounter an unpaired read, the second read in the pair will be set to null.- Parameters:
iterator
- iterator of reads- Returns:
- ReadPair object holding the reads, or null if there are no more reads in the iterator
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