gatk3的最后一个经典版本3.8

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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
licensing	Updated license information	2014-10-14 17:10:12 -04:00
protected	Added the RGQ format annotation to monomorphic sites in the VCF output of GenotypeGVCFs.	2015-03-13 10:27:20 -04:00
public	Added the RGQ format annotation to monomorphic sites in the VCF output of GenotypeGVCFs.	2015-03-13 10:27:20 -04:00
settings/helpTemplates	Output JSON version of docs for Galaxy	2014-10-09 06:42:25 -04:00
.gitignore	Fixed bug using GraphBased due to infinite likelihoods resulting from the calculation of alignment cost of very long insertion or deletions (done in linear scale)	2014-04-01 16:14:52 -04:00
README.md	Update README file for the 2.6 release	2013-06-20 13:08:29 -04:00
ant-bridge.sh	Added faster built executable, non-packaged jars.	2014-11-05 00:30:46 +08:00
intellij_example.tar.bz2	Removed the intellij files from the root and made an example package for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!)	2012-09-27 11:04:56 -04:00
pom.xml	Faster builds, with updates to documentation generation.	2014-11-05 00:32:23 +08:00

README.md

The Genome Analysis Toolkit

See http://www.broadinstitute.org/gatk/