carneiro b5b8cb959a Added VQSR to the downsampling script and changed memory limits for the clean script. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5817 348d0f76-0448-11de-a6fe-93d51630548a		2011-05-18 20:07:42 +00:00
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QuickCCTest.scala	implementation of the Gatherer class for CountCovariates, which makes it now scatter/gatherable. Kudos to the @Gather annotation Khalid just introduced!	2011-03-31 21:15:21 +00:00
dataProcessing.scala	Walkers can now specify a class extending from Gatherer to merge custom output formats. Add @Gather(MyGatherer.class) to the walker @Output.	2011-03-24 14:03:51 +00:00
dataProcessingV2.scala	removing old GATK options	2011-05-03 21:40:39 +00:00
downsampling.scala	Added VQSR to the downsampling script and changed memory limits for the clean script.	2011-05-18 20:07:42 +00:00
justClean.scala	Added VQSR to the downsampling script and changed memory limits for the clean script.	2011-05-18 20:07:42 +00:00
justRecalibrate.scala	just recalibrates now recalibrates one sample, fully, not splitting intervals (naming makes more sense)	2011-05-03 21:42:23 +00:00
justRecalibrateEach.scala	recalibrates a dataset splitting between good and bad regions for comparison (used to be named justRecalibrate)	2011-05-03 21:43:09 +00:00
mendelianViolation.scala	Script to identify mendelian violations in the CEU Trio and follow up with supposedly incorrect SNP calls	2011-05-03 21:19:42 +00:00
pbCalling.scala	Renaming ContrastiveRecalibrator --> VariantRecalibrator in preparation for move to core	2011-05-03 18:12:47 +00:00