public class RrbsMetricsCollector extends SAMRecordAndReferenceMultiLevelCollector<picard.analysis.RrbsMetrics,Comparable<?>>
UNKNOWN| Constructor and Description |
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RrbsMetricsCollector(Set<MetricAccumulationLevel> accumulationLevels,
List<htsjdk.samtools.SAMReadGroupRecord> samRgRecords,
int cQualityThreshold,
int nextBaseQualityThreshold,
int minReadLength,
double maxMismatchRate) |
| Modifier and Type | Method and Description |
|---|---|
protected PerUnitMetricCollector<picard.analysis.RrbsMetrics,Comparable<?>,SAMRecordAndReference> |
makeChildCollector(String sample,
String library,
String readGroup)
Construct a PerUnitMetricCollector with the given arguments.
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makeArgacceptRecord, addAllLevelsToFile, finish, getAllReadsCollector, makeAllReadCollector, makeLibraryCollector, makeReadGroupCollector, makeSampleCollector, setuppublic RrbsMetricsCollector(Set<MetricAccumulationLevel> accumulationLevels, List<htsjdk.samtools.SAMReadGroupRecord> samRgRecords, int cQualityThreshold, int nextBaseQualityThreshold, int minReadLength, double maxMismatchRate)
protected PerUnitMetricCollector<picard.analysis.RrbsMetrics,Comparable<?>,SAMRecordAndReference> makeChildCollector(String sample, String library, String readGroup)
MultiLevelCollectormakeChildCollector in class MultiLevelCollector<picard.analysis.RrbsMetrics,Comparable<?>,SAMRecordAndReference>sample - If aggregating by ALL_READS this will be null, otherwise the sample that will be used to identify
this collectorlibrary - If aggregating by SAMPLE this will be null, otherwise the library that will be used to identify
this collectorreadGroup - If aggregating by LIBRARY this will be null, otherwise the readGroup that will be used to identify
this collector