gatk3的最后一个经典版本3.8

Mark DePristo 9c7a35f73f HaplotypeCaller no longer creates haplotypes that involve cycles in the SeqGraph ... -- The kbest paths algorithm now takes an explicit set of starting and ending vertices, which is conceptually cleaner and works for either the cycle or no-cycle models. Allowing cycles can be re-enabled with an HC command line switch.		2013-04-08 12:47:50 -04:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	HaplotypeCaller no longer creates haplotypes that involve cycles in the SeqGraph	2013-04-08 12:47:50 -04:00
public	HaplotypeCaller no longer uses reads with poor likelihoods w.r.t. any haplotype	2013-04-08 12:47:49 -04:00
settings	Don't allow users to specify keys and IDs that contain angle brackets or equals signs (not allowed in VCF spec).	2013-04-05 00:52:32 -04:00
.gitignore	Fixing the licensing scripts	2013-01-26 13:42:49 -05:00
build.xml	Disable Contracts for Java for tests	2013-04-04 11:56:17 -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
ivy.xml	Brought all of ReduceReads to fastutils	2013-02-23 22:53:23 -05:00