Package picard.sam.markduplicates.util
Class PhysicalLocationForMateCigarSet
java.lang.Object
picard.sam.markduplicates.util.PhysicalLocationForMateCigarSet
This stores records that are comparable for detecting optical duplicates.
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
add
(ReadEndsForMateCigar end) Adds the end to this set, if not already added based on physical locationGets the set of read endsvoid
Removes the end from this set, if presentvoid
replace
(ReadEndsForMateCigar current, ReadEndsForMateCigar other) Replaces a given end with the other end.int
size()
The number of records in this set
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Constructor Details
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PhysicalLocationForMateCigarSet
public PhysicalLocationForMateCigarSet()
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Method Details
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add
Adds the end to this set, if not already added based on physical location -
size
public int size()The number of records in this set -
remove
Removes the end from this set, if present -
getReadEnds
Gets the set of read ends -
replace
Replaces a given end with the other end. This ensures that that current is in this set
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