Uses of Class
picard.sam.markduplicates.util.ReadEndsForMarkDuplicates

Packages that use ReadEndsForMarkDuplicates

Package	Description
picard.sam.markduplicates.util

Uses of ReadEndsForMarkDuplicates in picard.sam.markduplicates.util

Subclasses of ReadEndsForMarkDuplicates in picard.sam.markduplicates.util

Modifier and Type	Class and Description
class	ReadEndsForMarkDuplicatesWithBarcodes

Methods in picard.sam.markduplicates.util that return ReadEndsForMarkDuplicates

Modifier and Type	Method and Description
ReadEndsForMarkDuplicates	ReadEndsForMarkDuplicates.clone()
ReadEndsForMarkDuplicates	ReadEndsForMarkDuplicatesCodec.decode()
ReadEndsForMarkDuplicates	ReadEndsForMarkDuplicatesWithBarcodesCodec.decode()
ReadEndsForMarkDuplicates	DiskBasedReadEndsForMarkDuplicatesMap.remove(int mateSequenceIndex, java.lang.String key)
ReadEndsForMarkDuplicates	ReadEndsForMarkDuplicatesMap.remove(int mateSequenceIndex, java.lang.String key) Remove element with given key from the map.

Methods in picard.sam.markduplicates.util that return types with arguments of type ReadEndsForMarkDuplicates

Modifier and Type	Method and Description
htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>	ReadEndsForMarkDuplicatesCodec.clone()
htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>	ReadEndsForMarkDuplicatesWithBarcodesCodec.clone()

Methods in picard.sam.markduplicates.util with parameters of type ReadEndsForMarkDuplicates

Modifier and Type	Method and Description
void	ReadEndsForMarkDuplicatesCodec.encode(ReadEndsForMarkDuplicates read)
void	ReadEndsForMarkDuplicatesWithBarcodesCodec.encode(ReadEndsForMarkDuplicates read)
void	DiskBasedReadEndsForMarkDuplicatesMap.put(int mateSequenceIndex, java.lang.String key, ReadEndsForMarkDuplicates readEnds)
void	ReadEndsForMarkDuplicatesMap.put(int mateSequenceIndex, java.lang.String key, ReadEndsForMarkDuplicates readEnds) Store the element in the map with the given key.

Constructors in picard.sam.markduplicates.util with parameters of type ReadEndsForMarkDuplicates

Constructor and Description
ReadEndsForMarkDuplicates(ReadEndsForMarkDuplicates read)
ReadEndsForMarkDuplicatesWithBarcodes(ReadEndsForMarkDuplicates read)