Uses of Class
picard.analysis.CollectWgsMetrics.WgsMetrics

Packages that use CollectWgsMetrics.WgsMetrics

Package	Description
picard.analysis

Uses of CollectWgsMetrics.WgsMetrics in picard.analysis

Subclasses of CollectWgsMetrics.WgsMetrics in picard.analysis

Modifier and Type	Class and Description
static class	CollectRawWgsMetrics.RawWgsMetrics
static class	CollectWgsMetricsFromQuerySorted.QuerySortedSeqMetrics Deprecated. Metrics for evaluating the performance of whole genome sequencing experiments.
static class	CollectWgsMetricsFromSampledSites.SampledWgsMetrics Deprecated.
static class	CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverage Metrics for evaluating the performance of whole genome sequencing experiments.

Methods in picard.analysis that return CollectWgsMetrics.WgsMetrics

Modifier and Type	Method and Description
protected CollectWgsMetrics.WgsMetrics	CollectRawWgsMetrics.generateWgsMetrics()
protected CollectWgsMetrics.WgsMetrics	CollectWgsMetrics.generateWgsMetrics()
protected CollectWgsMetrics.WgsMetrics	CollectWgsMetricsFromSampledSites.generateWgsMetrics() Deprecated.
protected CollectWgsMetrics.WgsMetrics	CollectWgsMetrics.WgsMetricsCollector.getMetrics(htsjdk.samtools.util.Histogram<java.lang.Integer> depthHistogram, CountingFilter dupeFilter, CountingFilter mapqFilter, CountingPairedFilter pairFilter)

Method parameters in picard.analysis with type arguments of type CollectWgsMetrics.WgsMetrics

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