gatk3的最后一个经典版本3.8

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Eric Banks b1cb6196be Fixing bug in the physical phasing code, found by Valentin. It turns out that there can be some really complex situations even with a single sample where there are lots of unphasable hets around a hom. Previously we were trying to phase each of the hets against the hom, but that wasn't correct. Instead we now detect that situation and don't attempt to phase anything. Added a unit test to cover this situation.		2014-08-21 15:24:09 -04:00
licensing	deleted old license files	2013-07-02 16:36:47 -04:00
protected	Fixing bug in the physical phasing code, found by Valentin.	2014-08-21 15:24:09 -04:00
public	Moving new omniploidy likelihood calculation classes to their final package (as far as this pull-request is concerned) in org.broadinstitute.gatk.tools.walkers.genotyper	2014-08-19 11:54:29 -04:00
settings/helpTemplates	Various documentation improvements	2014-07-14 12:03:03 -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	Refactored maven directories and java packages replacing "sting" with "gatk".	2014-05-19 17:36:39 -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 3.3 development	2014-07-17 12:09:33 -04:00

README.md

The Genome Analysis Toolkit

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