gatk3的最后一个经典版本3.8

ebanks b282635b05 Complete reworking of Fisher's exact test for strand bias: ... - fixed math bug (pValue needs to be initialized to pCutoff, not 0) - perform factorial calculations in log space so that huge numbers don't explode - cache factorial calculations so that each value needs to be computed just once for any given instance of the filter I've tested it against R and it has held up so far... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1341 348d0f76-0448-11de-a6fe-93d51630548a		2009-07-30 18:52:13 +00:00
R	Updated python files	2009-07-07 14:15:39 +00:00
c	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
doc	moved to wiki	2009-07-22 16:35:23 +00:00
java	Complete reworking of Fisher's exact test for strand bias:	2009-07-30 18:52:13 +00:00
packages	Added indel cleaner and quality scores recalibrator to the GATK package.	2009-07-24 16:20:38 +00:00
perl	sortByRef now supports x:y location syntax	2009-07-07 16:42:40 +00:00
python	By default now writes output to JOBID.lsf.output instead of going to email -- based on recommendations from the cancer group	2009-07-28 13:18:58 +00:00
settings	Switched to Reflections (http://code.google.com/p/reflections/) project for	2009-07-21 18:32:22 +00:00
shell	Version 0.2.1 (released) of the TableRecalibrator	2009-06-25 22:50:55 +00:00
testdata	Derive examples from real data.	2009-07-10 04:21:37 +00:00
build.xml	added the abilty to build the jar's to a different location, like the following:	2009-07-23 04:06:58 +00:00
ivy.xml	Switched to Reflections (http://code.google.com/p/reflections/) project for	2009-07-21 18:32:22 +00:00