gatk-3.8

gatk3的最后一个经典版本3.8

Go to file

chartl c6441b585a Actually hook up the new indel genotyper and merge analyses into DAG (aka "i forgot to add()") git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4149 348d0f76-0448-11de-a6fe-93d51630548a		2010-08-27 18:00:50 +00:00
R	updated a whole bunch of column names to work like i want them to and added more informative figures for DOC	2010-08-26 18:19:09 +00:00
archive	Cleaning up playground utils and tests	2010-08-27 01:25:47 +00:00
c	Reduce file handle usage.	2010-01-05 18:03:01 +00:00
doc	removing the custom reflections library from the libs, and adding a release version. Hopefully this will fix the problem Menachem has been seeing with random JVM crashes. Also	2010-08-19 00:42:37 +00:00
java	Fix up liftover to enable lifting over indels	2010-08-27 17:55:27 +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	Enabling support for any scala used in QScripts.	2010-08-17 22:05:56 +00:00
perl	update to use new rod syntax	2010-08-25 20:21:53 +00:00
python	Changes from James Pirruccello: now can handle differences between UCSC and NCBI tables, properly sorting despite the contig prefix differences (presence or absence of 'chr'), and converts NCBI format to UCSC format for use by the GenomicAnnotator.	2010-08-26 19:02:29 +00:00
ruby	accidentally commited an old tool	2010-08-25 15:42:02 +00:00
scala	Actually hook up the new indel genotyper and merge analyses into DAG (aka "i forgot to add()")	2010-08-27 18:00:50 +00:00
settings	removing the custom reflections library from the libs, and adding a release version. Hopefully this will fix the problem Menachem has been seeing with random JVM crashes. Also	2010-08-19 00:42:37 +00:00
shell	Useful script to see the status of gsa computing resources. Crontab'd and will be arriving as email at 8 am	2010-08-07 12:36:28 +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	up the test mem. from 2g to 4g; we're currently hitting the 2g in aggregate across some of the larger tests	2010-08-27 01:39:05 +00:00
ivy.xml	Okay, finally done with VCF compression. Now:	2010-08-24 16:36:54 +00:00