gatk3的最后一个经典版本3.8

chartl 1da45cffb3 New: ... Minor changes to CoverageAndPowerWalker bootstrapping (faster selection of indeces). Entirely new Aritifical Pool Walker (ArtificialPoolWalkerMk2), will likely replace ArtificialPoolWalker on the next commit. Adapted the method of sampling, and added a helper context class: ArtificialPoolContext which carries much of the burden of calculation and data handling for the walker. The walker itself maps and reduces ArtificialPoolContexts. Cheers! git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1461 348d0f76-0448-11de-a6fe-93d51630548a		2009-08-26 21:42:35 +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	New:	2009-08-26 21:42:35 +00:00
packages	adding the package description for the VCF validator	2009-08-20 04:46:27 +00:00
perl	Now you can specify '-' instead of input file name, and the script will read from stdin	2009-08-14 20:30:56 +00:00
python	Added command line options to make the barcode analysis script executable by end users.	2009-08-24 21:15:09 +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	2009_02 release is no longer with us. Update the bam list.	2009-08-11 12:49:23 +00:00
build.xml	Exclude secondary base caller code from playground jar. Still TODO: figure	2009-07-30 21:02:46 +00:00
ivy.xml	Switched to Reflections (http://code.google.com/p/reflections/) project for	2009-07-21 18:32:22 +00:00