Uses of Class
picard.sam.markduplicates.util.AbstractOpticalDuplicateFinderCommandLineProgram

Packages that use AbstractOpticalDuplicateFinderCommandLineProgram

Package	Description
picard.sam.markduplicates
picard.sam.markduplicates.util

Uses of AbstractOpticalDuplicateFinderCommandLineProgram in picard.sam.markduplicates

Subclasses of AbstractOpticalDuplicateFinderCommandLineProgram in picard.sam.markduplicates

Modifier and Type	Class and Description
class	EstimateLibraryComplexity Attempts to estimate library complexity from sequence alone.
class	MarkDuplicates A better duplication marking algorithm that handles all cases including clipped and gapped alignments.
class	MarkDuplicatesWithMateCigar An even better duplication marking algorithm that handles all cases including clipped and gapped alignments.

Uses of AbstractOpticalDuplicateFinderCommandLineProgram in picard.sam.markduplicates.util

Subclasses of AbstractOpticalDuplicateFinderCommandLineProgram in picard.sam.markduplicates.util

Modifier and Type	Class and Description
class	AbstractMarkDuplicatesCommandLineProgram Abstract class that holds parameters and methods common to classes that perform duplicate detection and/or marking within SAM/BAM files.