Hierarchy For Package picard.analysis

Package Hierarchies:

• All Packages

Class Hierarchy

• java.lang.Object
  • picard.analysis.AbstractWgsMetricsCollector<T>
    • picard.analysis.CollectWgsMetrics.WgsMetricsCollector
      • picard.analysis.CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverageCollector
    • picard.analysis.FastWgsMetricsCollector
  • picard.analysis.AdapterUtility
  • picard.analysis.ChimeraUtil
  • picard.analysis.CollectAlignmentSummaryMetrics.CollectAlignmentRefArgCollection (implements picard.cmdline.argumentcollections.ReferenceArgumentCollection)
  • picard.analysis.CollectQualityYieldMetrics.QualityYieldMetricsCollector
  • picard.analysis.CollectRrbsMetrics.CollectRrbsMetricsReferenceArgumentCollection (implements picard.cmdline.argumentcollections.ReferenceArgumentCollection)
  • picard.analysis.CollectWgsMetrics.CollectWgsMetricsIntervalArgumentCollection (implements picard.cmdline.argumentcollections.IntervalArgumentCollection)
  • picard.cmdline.CommandLineProgram
    • picard.analysis.CollectJumpingLibraryMetrics
    • picard.analysis.CollectMultipleMetrics
    • picard.analysis.CollectOxoGMetrics
    • picard.analysis.CollectRrbsMetrics
    • picard.analysis.CollectWgsMetrics
      • picard.analysis.CollectRawWgsMetrics
      • picard.analysis.CollectWgsMetricsWithNonZeroCoverage
    • picard.analysis.CompareMetrics
    • picard.analysis.SinglePassSamProgram
      • picard.analysis.CollectAlignmentSummaryMetrics
      • picard.analysis.CollectBaseDistributionByCycle
      • picard.analysis.CollectGcBiasMetrics
      • picard.analysis.CollectInsertSizeMetrics
      • picard.analysis.CollectQualityYieldMetrics
      • picard.analysis.CollectRnaSeqMetrics
      • picard.analysis.MeanQualityByCycle
      • picard.analysis.QualityScoreDistribution
  • picard.analysis.CounterManager
  • picard.analysis.CounterManager.Counter
  • picard.analysis.GcBiasMetricsCollector.PerUnitGcBiasMetricsCollector (implements picard.metrics.PerUnitMetricCollector<BEAN,HKEY,ARGTYPE>)
  • picard.analysis.GcBiasUtils
  • htsjdk.samtools.metrics.MetricBase
    • picard.analysis.BaseDistributionByCycleMetrics
    • picard.analysis.CollectOxoGMetrics.CpcgMetrics
    • picard.analysis.CollectQualityYieldMetrics.QualityYieldMetrics
    • picard.analysis.FingerprintingDetailMetrics
    • picard.analysis.FingerprintingSummaryMetrics
    • picard.analysis.JumpingLibraryMetrics
    • picard.analysis.MergeableMetricBase
      • picard.analysis.WgsMetrics
        • picard.analysis.CollectRawWgsMetrics.RawWgsMetrics
        • picard.analysis.CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverage
    • picard.metrics.MultilevelMetrics
      • picard.analysis.AlignmentSummaryMetrics
      • picard.analysis.GcBiasDetailMetrics
      • picard.analysis.GcBiasSummaryMetrics
      • picard.analysis.InsertSizeMetrics
      • picard.analysis.RnaSeqMetrics
      • picard.analysis.RrbsCpgDetailMetrics
      • picard.analysis.RrbsSummaryMetrics
    • picard.analysis.TheoreticalSensitivityMetrics
  • picard.metrics.MultiLevelCollector<METRIC_TYPE,Histogram_KEY,ARGTYPE>
    • picard.analysis.GcBiasMetricsCollector
    • picard.metrics.SAMRecordAndReferenceMultiLevelCollector<BEAN,HKEY>
      • picard.analysis.AlignmentSummaryMetricsCollector
      • picard.analysis.RrbsMetricsCollector
  • picard.analysis.TheoreticalSensitivity
  • picard.analysis.TheoreticalSensitivity.RouletteWheel
  • picard.analysis.WgsMetricsProcessorImpl<T> (implements picard.analysis.WgsMetricsProcessor)

Interface Hierarchy

• picard.analysis.CollectMultipleMetrics.ProgramInterface
• picard.analysis.WgsMetricsProcessor

Annotation Type Hierarchy

• picard.analysis.MergeableMetricBase.MergeByAdding (implements java.lang.annotation.Annotation)
• picard.analysis.MergeableMetricBase.MergeByAssertEquals (implements java.lang.annotation.Annotation)
• picard.analysis.MergeableMetricBase.MergingIsManual (implements java.lang.annotation.Annotation)
• picard.analysis.MergeableMetricBase.NoMergingIsDerived (implements java.lang.annotation.Annotation)
• picard.analysis.MergeableMetricBase.NoMergingKeepsValue (implements java.lang.annotation.Annotation)

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • picard.analysis.CollectMultipleMetrics.Program (implements picard.analysis.CollectMultipleMetrics.ProgramInterface)
    • picard.analysis.AlignmentSummaryMetrics.Category
    • picard.analysis.CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverage.Category
    • picard.analysis.MetricAccumulationLevel