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From: Tim F. <tfe...@br...> - 2014-09-24 13:14:06
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Hi John, Samtools and picard use very similar algorithms. The major difference IIRC is that picard’s MarkDuplicates works for inter-chromosomal pairs whereas samtools restricts itself to pairs where both ends map to the same chromosome for performance reasons. -t On Sep 22, 2014, at 5:07 PM, John Duce <joh...@gm...> wrote: > Dear Samtools Gurus, > > I did a lot of googling and looking through the code but I couldn't find anything definitive about my question. It is my understanding that samtools rmdup removes duplicates based on position only, whereas picard MarkDuplicates marks duplicates based on position and sequence. Is this correct? > > John Duce > ------------------------------------------------------------------------------ > Meet PCI DSS 3.0 Compliance Requirements with EventLog Analyzer > Achieve PCI DSS 3.0 Compliant Status with Out-of-the-box PCI DSS Reports > Are you Audit-Ready for PCI DSS 3.0 Compliance? Download White paper > Comply to PCI DSS 3.0 Requirement 10 and 11.5 with EventLog Analyzer > http://pubads.g.doubleclick.net/gampad/clk?id=154622311&iu=/4140/ostg.clktrk_______________________________________________ > Samtools-help mailing list > Sam...@li... > https://lists.sourceforge.net/lists/listinfo/samtools-help |