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CNV
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Fixed bug that required symbolic alleles to be padded with reference base and added integration test to test parsing and output of symbolic alleles
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2011-08-12 12:23:44 -04:00 |
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annotator
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Improved descriptions for the SnpEff annotations in the VCF header
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2011-08-17 16:09:10 -04:00 |
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beagle
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Thanks to Mark for agreeing to transition from 'variants' back to 'variant'. I think I got them all but I've been jumping all around the code, so there might be a straggler or two.
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2011-08-09 12:04:55 -04:00 |
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coverage
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Moving more tools over to the new rod system
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2011-08-10 13:42:35 -04:00 |
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diffengine
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Spelling fix requires md5 updates
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2011-08-26 07:40:44 -04:00 |
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fasta
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More updates to be consistent with the new rod syntax.
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2011-08-09 10:11:37 -04:00 |
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filters
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Thanks to Mark for agreeing to transition from 'variants' back to 'variant'. I think I got them all but I've been jumping all around the code, so there might be a straggler or two.
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2011-08-09 12:04:55 -04:00 |
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genotyper
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Uncomment code to add deleted bases covering an indel to per-sample genotype reporting, update integration tests accordingly
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2011-09-10 19:41:01 -04:00 |
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indels
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Moving more tools over to the new rod system
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2011-08-10 13:42:35 -04:00 |
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phasing
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Update to new RodBinding system
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2011-08-11 17:54:16 -04:00 |
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qc
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Thanks to Mark for agreeing to transition from 'variants' back to 'variant'. I think I got them all but I've been jumping all around the code, so there might be a straggler or two.
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2011-08-09 12:04:55 -04:00 |
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recalibration
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Fixing syntax of BQSR and UG performance tests.
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2011-08-11 17:04:09 -04:00 |
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validation
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Continuing progress towards RodBinding 1.0
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2011-08-03 17:19:28 -04:00 |
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varianteval
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Missed these tests before
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2011-09-09 11:46:37 -04:00 |
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variantrecalibration
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Changing the VQSR command line syntax back to the parsed tags approach. This cleans up the code and makes sure we won't be parsing the same rod file multiple times. I've tried to update the appropriate qscripts.
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2011-09-12 12:17:43 -04:00 |
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variantutils
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updating Validate Variants deletion integration test
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2011-09-09 13:39:08 -04:00 |
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BAQIntegrationTest.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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ClipReadsWalkersIntegrationTest.java
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Swapped argument order but not MD5 order
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2011-08-19 16:55:56 -04:00 |
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PileupWalkerIntegrationTest.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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PrintReadsIntegrationTest.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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PrintReadsWalkerUnitTest.java
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Reorganized the codebase beneath top-level public and private directories,
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2011-06-28 06:55:19 -04:00 |
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