rpoplin 6c7a0adc76 Updating VariantGaussianMixtureModelUnitTest to use truth sensitivity cutting ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5750 348d0f76-0448-11de-a6fe-93d51630548a		2011-05-04 13:56:01 +00:00
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vcf	…
TabularDataTest.dat	…
TabularDataTest2.dat	…
ValidatingPileupTargets.list	…
defaultGATKConfig.cfg	…
exampleBAM.bam	…
exampleBAM.bam.bai	…
exampleFASTA.dict	…
exampleFASTA.fasta	…
exampleFASTA.fasta.fai	…
exampleNORG.bam	ReplaceReadGroups. Fixes BAM files without read group info. MissingReadGroup points people to this tool now. Please point users on the forum to this tool now. Will migrate to Picard.	2011-02-21 14:02:41 +00:00
exampleNORG.bam.bai	ReplaceReadGroups. Fixes BAM files without read group info. MissingReadGroup points people to this tool now. Please point users on the forum to this tool now. Will migrate to Picard.	2011-02-21 14:02:41 +00:00
gFFTest.gff	…
logisticParamsTest.list	…
recalConfig_1KG.cfg	…
sampleBedFile.bed	…
small.dbsnp.rod	…
tranches.4.txt	…
tranches.6.txt	Updating VariantGaussianMixtureModelUnitTest to use truth sensitivity cutting	2011-05-04 13:56:01 +00:00
tranches.raw.dat	VQSR now operates on LOD scores in the INFO field directly, and doesn't adjust the QUAL field. New format for tranches file uses LOD score. Old file format no longer supported. log10sumlog10() function, a very useful utility in MathUtils. No more ExtendedPileupElement! Robust math calculations in GMM so that no infinities are generated! HaplotypeScore refactored to enable use of filtered context. Not yet enabled... InferredContext getDouble and getInteger arguments now parse values from Strings if necessary	2010-11-15 22:19:22 +00:00