depristo e219f6a4b5 Q script to run VQSR on a whole variety of common data sets. To be used as a basis for general methods development pipeline ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4826 348d0f76-0448-11de-a6fe-93d51630548a		2010-12-13 16:55:52 +00:00
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qscript	Q script to run VQSR on a whole variety of common data sets. To be used as a basis for general methods development pipeline	2010-12-13 16:55:52 +00:00
src	Updates and bug fixes to private mutations qscript and pipeline libraries. Hand filter strings are now not busted (boo to having to escape quotes); convenience method added to VariantCalling to propagate standard trait data to a given GATK command line -- should be made more scala-esque in the future.	2010-12-13 04:55:13 +00:00
test/org/broadinstitute/sting/queue	Switched from LSF command line wrappers to JNA wrappers around the C API. Side effects:	2010-12-10 04:36:06 +00:00