Hierarchy For Package picard.sam.markduplicates

Package Hierarchies:

• All Packages

Class Hierarchy

• java.lang.Object
  • picard.cmdline.CommandLineProgram
    • picard.sam.markduplicates.util.AbstractOpticalDuplicateFinderCommandLineProgram
      • picard.sam.markduplicates.util.AbstractMarkDuplicatesCommandLineProgram
        • picard.sam.markduplicates.MarkDuplicates (implements picard.sam.markduplicates.MarkDuplicatesHelper)
          • picard.sam.markduplicates.SimpleMarkDuplicatesWithMateCigar
            • picard.sam.markduplicates.UmiAwareMarkDuplicatesWithMateCigar
        • picard.sam.markduplicates.MarkDuplicatesWithMateCigar
      • picard.sam.markduplicates.EstimateLibraryComplexity
    • picard.sam.markduplicates.CheckDuplicateMarking
    • picard.analysis.SinglePassSamProgram
      • picard.sam.markduplicates.CollectDuplicateMetrics
  • picard.sam.markduplicates.MarkDuplicatesForFlowArgumentCollection
  • picard.sam.markduplicates.MarkDuplicatesForFlowHelper (implements picard.sam.markduplicates.MarkDuplicatesHelper)
  • picard.sam.markduplicates.MarkDuplicatesWithMateCigarIterator (implements htsjdk.samtools.SAMRecordIterator)
  • htsjdk.samtools.metrics.MetricBase
    • picard.sam.markduplicates.UmiMetrics
  • picard.sam.markduplicates.UmiGraph

Interface Hierarchy

• picard.sam.markduplicates.MarkDuplicatesHelper

Enum Class Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.lang.constant.Constable, java.io.Serializable)
    • picard.sam.markduplicates.CheckDuplicateMarking.Mode (implements org.broadinstitute.barclay.argparser.CommandLineParser.ClpEnum)
    • picard.sam.markduplicates.MarkDuplicates.DuplicateTaggingPolicy
    • picard.sam.markduplicates.MarkDuplicates.DuplicateType