gatk3的最后一个经典版本3.8

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Ryan Poplin 04ddbac585 Improvements to the Random Forest pipeline based on Marathon results. -- We no longer use QUAL because it scales insidiously with AC. -- By default we exclude sites in which NA12878 is polymorphic to prevent overfitting to the knowledgebase. -- Tweaks to training parameters were required because of the QUAL change. -- We now test for model convergence instead of specifying the number of iterations at the command line.		2014-04-11 12:16:05 -04:00
licensing	deleted old license files	2013-07-02 16:36:47 -04:00
protected	After comments from @nh13, updated latest picard and setMateInfo call.	2014-04-08 15:22:45 -04:00
public	Test that stdout redirects and log files do not affect output	2014-04-09 13:52:42 -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	Update pom versions to mark the start of GATK 3.2 development	2014-03-18 01:18:59 -04:00

README.md

The Genome Analysis Toolkit

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