ebanks 4c1fa52ddf -Added mapping quality zero filter ... -Set some reasonable defaults (based on pilot2) git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1388 348d0f76-0448-11de-a6fe-93d51630548a		2009-08-07 03:18:02 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src/org/broadinstitute/sting	-Added mapping quality zero filter	2009-08-07 03:18:02 +00:00
test/org/broadinstitute/sting	Continuing cleanup of SSG. GenotypeLikelihoods now have extensive testing routines. DiploidGenotype supports het, homref, etc calculations. SSG has been cleaned up to remove old garbage functionality. Also now supports output to standard output by simply omitting varout	2009-08-05 22:25:30 +00:00