picard.analysis

Class CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverageCollector

java.lang.Object

picard.analysis.CollectWgsMetrics.WgsMetricsCollector

picard.analysis.CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverageCollector

Enclosing class:

CollectWgsMetricsWithNonZeroCoverage

protected class CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverageCollector
extends CollectWgsMetrics.WgsMetricsCollector

Field Summary

Fields inherited from class picard.analysis.CollectWgsMetrics.WgsMetricsCollector

coverageCap, histogramArray

Constructor Summary

Constructors

Constructor and Description
WgsMetricsWithNonZeroCoverageCollector(int coverageCap)

Method Summary

Modifier and Type	Method and Description
void	addToMetricsFile(htsjdk.samtools.metrics.MetricsFile<CollectWgsMetrics.WgsMetrics,java.lang.Integer> file, boolean includeBQHistogram, CountingFilter dupeFilter, CountingFilter mapqFilter, CountingPairedFilter pairFilter)
boolean	areHistogramsEmpty()

Methods inherited from class picard.analysis.CollectWgsMetrics.WgsMetricsCollector

addBaseQHistogram, addInfo, addMetricsToFile, getDepthHistogram, getMetrics

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

WgsMetricsWithNonZeroCoverageCollector

public WgsMetricsWithNonZeroCoverageCollector(int coverageCap)

Method Detail

addToMetricsFile

public void addToMetricsFile(htsjdk.samtools.metrics.MetricsFile<CollectWgsMetrics.WgsMetrics,java.lang.Integer> file,
                             boolean includeBQHistogram,
                             CountingFilter dupeFilter,
                             CountingFilter mapqFilter,
                             CountingPairedFilter pairFilter)

Overrides:

addToMetricsFile in class CollectWgsMetrics.WgsMetricsCollector

areHistogramsEmpty

public boolean areHistogramsEmpty()