chartl 10bde9e77b Integration test for BTT calculator ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1876 348d0f76-0448-11de-a6fe-93d51630548a		2009-10-19 18:21:55 +00:00
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varianteval	Updated integration tests for VariantEval. Hooray for IT!	2009-10-16 20:00:29 +00:00
variantstovcf	changes to VCF output, and updated MD5's in the integration tests	2009-10-14 18:42:48 +00:00
BaseTransitionTableCalculatorJavaIntegrationTest.java	Integration test for BTT calculator	2009-10-19 18:21:55 +00:00
ClipReadsWalkersIntegrationTest.java	simpleComplement function() in BaseUtils. Generic framework for clipping reads along with tests. Support for Q score based clipping, sequence-specific clipping (not1), and clipping of ranges of bases (cycles 1-5, 10-15 for example). Can write out clipped bases as Ns, quality scores as 0s, or in the future will support softclipping the bases themselves.	2009-10-16 22:29:35 +00:00