gatk3的最后一个经典版本3.8

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Valentin Ruano-Rubio d563072282 Fix for CombineGVCFs and GenotypeGVCFs recurrent exception about missing PLs Story: https://www.pivotaltracker.com/story/show/68220438 Changes: - PL-less input genotypes are now uncalled and so non-variant sites when combining GVCFs. - HC GVCF/BP_RESOLUTION Mode now outputs non-variant sites in sites covered by deletions. - Fixed existing tests Test: - HaplotypeCallerGVCFIntegrationTest - ReferenceConfidenceModelUnitTest - CombineGVCFsIntegrationTest		2014-05-02 09:21:06 -04:00
licensing	deleted old license files	2013-07-02 16:36:47 -04:00
protected	Fix for CombineGVCFs and GenotypeGVCFs recurrent exception about missing PLs	2014-05-02 09:21:06 -04:00
public	Fix for CombineGVCFs and GenotypeGVCFs recurrent exception about missing PLs	2014-05-02 09:21:06 -04:00
settings/helpTemplates	Replaced local drmaa and Jama artifacts with versions from maven central.	2014-02-22 01:21:35 +08:00
.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	Rename existing PipelineTests to QueueTests to prepare for upcoming push of new pipeline tests	2014-03-10 21:24:03 -04:00
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	Quoting -out parameter during resource bundle (StingText.properties) creation.	2014-04-15 17:06:49 +08:00

README.md

The Genome Analysis Toolkit

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