Eric Banks 1ff9463285 Added the RGQ format annotation to monomorphic sites in the VCF output of GenotypeGVCFs. ... Now, instead of stripping out the GQs for mono sites, we transfer them to the RGQ. This is extremely useful for people who want to know how confident the hom ref genotype calls are. Perhaps this is just what CRSP needs for pertinent negatives. Note that I also changed the tool to no longer use the GenotypeSummaries annotation by default since it was adding some seemingly unnecessary annotations (like mean GQ now that we keep the GQ around and number of no-calls). Let me know if this was a mistake (although Laura gave me a thumbs up).		2015-03-13 10:27:20 -04:00
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gatk-package-distribution	Added faster built executable, non-packaged jars.	2014-11-05 00:30:46 +08:00
gatk-queue-extensions-distribution	Added optional element "includeUnmapped" to the PartitionBy annotation	2015-01-31 15:47:57 -05:00
gatk-queue-package-distribution	Added faster built executable, non-packaged jars.	2014-11-05 00:30:46 +08:00
gatk-tools-protected	Added the RGQ format annotation to monomorphic sites in the VCF output of GenotypeGVCFs.	2015-03-13 10:27:20 -04:00
pom.xml	Update pom versions to mark the start of GATK 3.4 development	2014-10-23 22:31:44 -04:00