```
public class LibraryIdGenerator
extends Object
```
A class to generate library Ids and keep duplication metrics by library IDs.

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`addMetricsByLibrary(String library, DuplicationMetrics metrics)`
`htsjdk.samtools.util.Histogram<Double>`	`getDuplicateCountHist()`
`short`	`getLibraryId(htsjdk.samtools.SAMRecord rec)`	Get the library ID for the given SAM record.
`Map<String,Short>`	`getLibraryIdsMap()`
`static String`	`getLibraryName(htsjdk.samtools.SAMFileHeader header, htsjdk.samtools.SAMRecord rec)`	Gets the library name from the header for the record.
`DuplicationMetrics`	`getMetricsByLibrary(String library)`
`Map<String,DuplicationMetrics>`	`getMetricsByLibraryMap()`
`htsjdk.samtools.util.Histogram<Double>`	`getNonOpticalDuplicateCountHist()`
`long`	`getNumberOfOpticalDuplicateClusters()`
`htsjdk.samtools.util.Histogram<Double>`	`getOpticalDuplicateCountHist()`
`htsjdk.samtools.util.Histogram<Short>`	`getOpticalDuplicatesByLibraryIdMap()`
`static String`	`getReadGroupLibraryName(htsjdk.samtools.SAMReadGroupRecord readGroup)`

public LibraryIdGenerator(htsjdk.samtools.SAMFileHeader header)

public Map<String,Short> getLibraryIdsMap()

public Map<String,DuplicationMetrics> getMetricsByLibraryMap()

public htsjdk.samtools.util.Histogram<Short> getOpticalDuplicatesByLibraryIdMap()

public htsjdk.samtools.util.Histogram<Double> getDuplicateCountHist()

public htsjdk.samtools.util.Histogram<Double> getNonOpticalDuplicateCountHist()

public htsjdk.samtools.util.Histogram<Double> getOpticalDuplicateCountHist()

public static String getReadGroupLibraryName(htsjdk.samtools.SAMReadGroupRecord readGroup)

public short getLibraryId(htsjdk.samtools.SAMRecord rec)

Get the library ID for the given SAM record.

public DuplicationMetrics getMetricsByLibrary(String library)

public void addMetricsByLibrary(String library,
                                DuplicationMetrics metrics)

public long getNumberOfOpticalDuplicateClusters()

Class LibraryIdGenerator