Eric Banks 300b474c96 Several improvements to the single sample combining steps. ... 1. updated QualByDepth not to use AD-restricted depth if it is zero. Added unit test this change. 2. Fixed small bug in CombineGVCFs where spanning deletions were not being treated consistently throughout. Added test for this situation. 3. Make sure GenotypeGVCFs puts in the required headers. Updated test files to make sure this is covered. 4. Have GenotypeGVCFs propagate up the MLEAC/AF (which were getting clobbered out). Tests updated to account for this.		2014-02-12 10:15:12 -05:00
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gatk	Several improvements to the single sample combining steps.	2014-02-12 10:15:12 -05:00
utils	Remove a whole bunch of unused annotations from gVCF output.	2014-02-07 08:49:36 -05:00
package-info.java	Moved files to maven directories.	2014-02-03 13:50:44 -05:00