hanna c1ecf75dd5 Update to the latest rev of the picard sharding patch. Includes updates reflecting ... the imminent move of IlluminaUtil into picard public. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3493 348d0f76-0448-11de-a6fe-93d51630548a		2010-06-06 20:33:21 +00:00
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Aligner.xml	…
AnalyzeConcordance.xml	Added a playground concordance analyzer for summarizing VariantEval across a group.	2010-02-22 20:28:52 +00:00
AnalyzeCovariates.xml	…
CreatePackager.xsl	Tweak the layout of the resulting .tar.bz2 a bit.	2010-01-27 22:07:37 +00:00
FindContaminatingReadGroups.xml	…
GATK-Picard.xml	…
GATKResources.xml	…
GenomeAnalysisTK.xml	VariantOptimizer package is moved to core, renamed as VariantRecalibration, and added to the binary release package. VariantOptimizer walker is renamed to GenerateVariantClustersWalker and ApplyVariantClustersWalker renamed to VariantRecalibrator. Integration tests added, performance tests still to be done.	2010-05-28 18:20:18 +00:00
IndelGenotyper.xml	Bringing IndelGenotyper back to life	2010-02-03 20:12:49 +00:00
LocalRealignmentAroundIndels.xml	Since IntervalCleaner is gone for good, it is sensible to update the package to refer to the new IndelRealigner instead	2010-02-24 16:42:56 +00:00
PicardPrivate.xml	Update to the latest rev of the picard sharding patch. Includes updates reflecting	2010-06-06 20:33:21 +00:00
QualityScoresRecalibration.xml	…
UnifiedGenotyper.xml	…
VariantAnnotator.xml	Adding HaplotypeScore to the VariantAnnotator package (so it can be used with Firehose)	2010-04-14 18:37:21 +00:00
VariantEval.xml	Renaming for consistency	2010-04-21 03:00:43 +00:00
VariantFiltration.xml	…
VariantRecalibration.xml	VariantOptimizer package is moved to core, renamed as VariantRecalibration, and added to the binary release package. VariantOptimizer walker is renamed to GenerateVariantClustersWalker and ApplyVariantClustersWalker renamed to VariantRecalibrator. Integration tests added, performance tests still to be done.	2010-05-28 18:20:18 +00:00