gatk3的最后一个经典版本3.8

depristo 66931d433c useful routines for R ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3685 348d0f76-0448-11de-a6fe-93d51630548a		2010-06-30 16:38:49 +00:00
R	useful routines for R	2010-06-30 16:38:49 +00:00
archive	Retiring multi-sample genotyper	2010-05-20 14:11:11 +00:00
c	Reduce file handle usage.	2010-01-05 18:03:01 +00:00
doc	moved to wiki	2009-07-22 16:35:23 +00:00
java	Refactored and generalized the database/comp annotations in VariantAnnotator. Now one can provide comp tracks as with VariantEval (e.g. compHapMap, comp1KG_CEU) and the INFO field will be annotated with the track name (without the 'comp') if the variant record overlaps a comp site (e.g. ...;1KG_CEU;...). This means that you can now pass 1kg calls to the Unified Genotyper and automatically have records annotated with their presence in 1kg.	2010-06-30 16:37:31 +00:00
matlab	Another matlab script -- this time for making power and coverage plots over a specific gene region. Lots of fun file reading, string manipulation, and exploration of the set() function	2009-11-30 20:02:25 +00:00
packages	Update to the latest rev of the picard sharding patch. Includes updates reflecting	2010-06-06 20:33:21 +00:00
perl	Updates to not depend on an environment variable to figure out where libraries are (helpful for installation at the Sanger).	2010-06-28 15:46:41 +00:00
python	misc. useful updates to python library	2010-06-30 16:33:32 +00:00
ruby	Adding the ruby directory, and a simple script to restart Bamboo	2009-12-03 22:48:48 +00:00
scala	Added "-bsubWait" where Queue waits for all the jobs to exit before exiting.	2010-06-28 19:52:17 +00:00
settings	Rev'ing Tribble with a special version that has excluded VCF 3.3	2010-06-25 18:20:51 +00:00
shell	Refactoring for a first version of scatter gather api with basic shell script implementations.	2010-06-22 18:39:20 +00:00
testdata	and add changes to the vcf used in testing	2010-06-25 02:56:02 +00:00
LICENSE	Adding a license to the root directory in case BOSC checks for one. Has the	2010-04-20 16:04:29 +00:00
build.xml	Refactoring for a first version of scatter gather api with basic shell script implementations.	2010-06-22 18:39:20 +00:00
ivy.xml	Refactoring for a first version of scatter gather api with basic shell script implementations.	2010-06-22 18:39:20 +00:00