hanna 3553fc9ec0 Preparing for human -- support bwa output files directly rather than relying on a custom fixed sa interval. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1833 348d0f76-0448-11de-a6fe-93d51630548a		2009-10-14 17:17:46 +00:00
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alignment	Preparing for human -- support bwa output files directly rather than relying on a custom fixed sa interval.	2009-10-14 17:17:46 +00:00
gatk	Merge both versions of the Sequenom assay design maker: use Jared's base code and add in indels. [Jared, this still emits the same output for SNPs as your original version)	2009-10-14 17:11:45 +00:00
playground	Merge both versions of the Sequenom assay design maker: use Jared's base code and add in indels. [Jared, this still emits the same output for SNPs as your original version)	2009-10-14 17:11:45 +00:00
secondarybase	Rev'ing Picard, which includes the update to get all the reads in the query region (GSA-173). With it come a bunch of fixes, including retiring the FourBaseRecaller code, and updated md5 for some walker tests.	2009-09-30 20:37:59 +00:00
utils	Fixed logic: throw exception if contigs are NOT equal	2009-10-14 02:48:44 +00:00