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CNV
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GATK tests use public/testdata not /humgen/ as much as possible
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2012-05-24 10:58:58 -04:00 |
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annotator
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Made GQ an int, not a float. Updated VC code and lots of corresponding MD5s
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2012-05-28 20:20:05 -04:00 |
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beagle
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Missed one integration test
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2012-05-29 07:23:24 -04:00 |
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bqsr
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Oops, forgot to push the unit tests
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2012-06-12 11:38:30 -04:00 |
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coverage
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DoC now properly handles reference N bases + misc. additional cleanups
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2012-02-25 11:32:50 -05:00 |
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diagnostics
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DiagnoseTargets with working Q1,Median,Q3
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2012-05-29 10:16:45 -04:00 |
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diffengine
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Update MD5s to reflect new limited output of DiffObjectsWalkers
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2012-05-27 11:20:47 -04:00 |
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fasta
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Removing the legacy -L "interval1;interval2" syntax
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2011-11-21 13:18:53 -05:00 |
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filters
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Made GQ an int, not a float. Updated VC code and lots of corresponding MD5s
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2012-05-28 20:20:05 -04:00 |
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genotyper
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Made GQ an int, not a float. Updated VC code and lots of corresponding MD5s
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2012-05-28 20:20:05 -04:00 |
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indels
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GATK tests use public/testdata not /humgen/ as much as possible
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2012-05-24 10:58:58 -04:00 |
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phasing
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Made GQ an int, not a float. Updated VC code and lots of corresponding MD5s
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2012-05-28 20:20:05 -04:00 |
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qc
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First version of VariantContextBuilder
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2011-11-18 11:06:15 -05:00 |
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recalibration
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GATK tests use public/testdata not /humgen/ as much as possible
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2012-05-24 10:58:58 -04:00 |
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validation
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GATK tests use public/testdata not /humgen/ as much as possible
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2012-05-24 10:58:58 -04:00 |
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varianteval
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Final updates to integration tests for BCF2
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2012-05-24 10:58:59 -04:00 |
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variantrecalibration
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Bug fix in VQSR so that the VCF index will be created for the recalFile.
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2012-06-08 11:51:28 -04:00 |
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variantutils
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Refactored VariantsToTable so that 1) genotype-level fields can be specified (stabilized and supported code) and 2) the --moltenize argument could be supported to produce molten output of the data. Added tests that cover these capabilities.
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2012-06-04 14:28:32 -04:00 |
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BAQIntegrationTest.java
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merge master
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2011-10-25 16:08:39 -04:00 |
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ClipReadsWalkersIntegrationTest.java
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GATK tests use public/testdata not /humgen/ as much as possible
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2012-05-24 10:58:58 -04:00 |
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FlagStatIntegrationTest.java
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Adding integration test for Flag Stat
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2012-04-10 22:40:38 -04:00 |
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PileupWalkerIntegrationTest.java
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Had some free time, so I unplugged extended events from the walkers. Now they exist only in LocusIteratorByState, but ReadProperties.generateExtendedEvents() always returns false so that block is never actually executed anymore. I don't want to touch LIBS because I think David is in there right now.
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2012-04-02 14:27:36 -04:00 |
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PrintReadsIntegrationTest.java
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GATK tests use public/testdata not /humgen/ as much as possible
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2012-05-24 10:58:58 -04:00 |
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PrintReadsUnitTest.java
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Better location for the downsampling of reads in PrintReads
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2012-01-14 14:06:09 -05:00 |
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