depristo 5c979633f0 Due to a problem in the way that dynamic type selection works, I've added an explicit (temporary) ability to restrict VE to specific variant types (SNPs, INDELs, etc), so that calculations will work when a site has a SNP in dbSNP but is called as an indel, causing the SNP site to mysteriously disappear from the comp track, a huge problem for validation report. VEU updated to allow both dynamic type (old) and just returning everything in the track. ... Also, created a standard Queue script that calculates a suite of standard indel and SNP assessment results. Will be the basis for a general evaluation Queue script with standardized data files for SNPs and Indels. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5385 348d0f76-0448-11de-a6fe-93d51630548a		2011-03-06 19:31:12 +00:00
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1kg_table1.scala	Refactoring the qscript directory; oneoffs, playground, and core	2011-01-19 15:23:40 +00:00
CleaningTest.scala	Removing unused class	2011-02-04 22:22:28 +00:00
StandardVariantEvalation.scala	Due to a problem in the way that dynamic type selection works, I've added an explicit (temporary) ability to restrict VE to specific variant types (SNPs, INDELs, etc), so that calculations will work when a site has a SNP in dbSNP but is called as an indel, causing the SNP site to mysteriously disappear from the comp track, a huge problem for validation report. VEU updated to allow both dynamic type (old) and just returning everything in the track.	2011-03-06 19:31:12 +00:00
VQSRCutByNRS.scala	Removing unused class	2011-02-04 22:22:28 +00:00
manySampleUGPerformance.scala	Class name to reflect actual file name. manySampleUGPerformance now operates on 1000 samples!	2011-02-26 23:36:04 +00:00
resequencingSamples1KG.scala	Class name to reflect actual file name. manySampleUGPerformance now operates on 1000 samples!	2011-02-26 23:36:04 +00:00