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Aligner.xml
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Cleanup and formatting overhaul.
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2010-01-21 19:22:56 +00:00 |
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AnalyzeConcordance.xml
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Added a playground concordance analyzer for summarizing VariantEval across a group.
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2010-02-22 20:28:52 +00:00 |
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AnalyzeCovariates.xml
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A few more bug fixes based on extended testing. Sorry, Eric.
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2010-01-21 22:12:16 +00:00 |
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CreatePackager.xsl
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Adding the native jna support libraries from the jna.jar to the Queue package jar.
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2011-01-08 10:48:30 +00:00 |
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FindContaminatingReadGroups.xml
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Cleanup and formatting overhaul.
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2010-01-21 19:22:56 +00:00 |
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GATK-Picard.xml
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A few more bug fixes based on extended testing. Sorry, Eric.
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2010-01-21 22:12:16 +00:00 |
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GATKResources.xml
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/broad/1KG doesn't exist
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2010-10-06 12:54:38 +00:00 |
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GenomeAnalysisTK.xml
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Be certain to include core GATK reference metadata features and codecs in the
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2010-12-21 21:30:07 +00:00 |
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IndelGenotyper.xml
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Bringing IndelGenotyper back to life
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2010-02-03 20:12:49 +00:00 |
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LocalRealignmentAroundIndels.xml
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Since IntervalCleaner is gone for good, it is sensible to update the package to refer to the new IndelRealigner instead
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2010-02-24 16:42:56 +00:00 |
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PicardPrivate.xml
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Update to the latest rev of the picard sharding patch. Includes updates reflecting
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2010-06-06 20:33:21 +00:00 |
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QualityScoresRecalibration.xml
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A few more bug fixes based on extended testing. Sorry, Eric.
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2010-01-21 22:12:16 +00:00 |
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Queue.xml
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Adding the native jna support libraries from the jna.jar to the Queue package jar.
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2011-01-08 10:48:30 +00:00 |
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RMDIndexer.xml
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include the codecs into the RMD indexer that are available in the GATK, not just Tribble
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2010-11-11 06:35:04 +00:00 |
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UnifiedGenotyper.xml
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Cleanup and formatting overhaul.
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2010-01-21 19:22:56 +00:00 |
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VariantAnnotator.xml
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Include all standard annotations
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2010-10-11 20:52:08 +00:00 |
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VariantEval.xml
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Add CountFunctionalVariants to local release (for firehose)
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2010-07-17 01:36:16 +00:00 |
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VariantFiltration.xml
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Temporary solution: add the commons logging implementation to the VariantFiltration package. Downstream solution is described in GSA-262.
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2010-01-23 01:46:18 +00:00 |
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VariantRecalibration.xml
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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.
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2010-05-28 18:20:18 +00:00 |
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