gatk3的最后一个经典版本3.8

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Ami Levy-Moonshine 9e5333f1d1 create a new tool CountMutationTypes The new tool gets an VCF file as an input and create a GATK report with the percentages of each mutation type (e.g. A->G, A->T...). It allow the user to filter sites that will be count based of JXEL or based on the varait quals A user can aslo print 12 VCF files (one for each mutation) with the VCF line of the mutations that were counted.		2014-04-23 14:22:33 -04:00
licensing	deleted old license files	2013-07-02 16:36:47 -04:00
protected	Fixed integration test problems from previous premature merge	2014-04-20 17:11:51 -04:00
public	Allow for non-tab whitespace in sample names when performing on-the-fly sample-renaming.	2014-04-22 11:07:13 -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/