gatk3的最后一个经典版本3.8

Mark DePristo 92ac9e7f65 AssessNA12878 now emits a simplified assessment table by default ... -- New report collapses the detailed states in the 5 key states: TP, FP, FN, TN, unknown, such as in the following example: Name VariantType AssessmentType Count variant SNPS TRUE_POSITIVE 6 variant SNPS FALSE_POSITIVE 9 variant SNPS FALSE_NEGATIVE 1213 variant SNPS TRUE_NEGATIVE 172 variant SNPS CALLED_NOT_IN_DB_AT_ALL 0 variant INDELS TRUE_POSITIVE 19 variant INDELS FALSE_POSITIVE 13 variant INDELS FALSE_NEGATIVE 262 variant INDELS TRUE_NEGATIVE 57 variant INDELS CALLED_NOT_IN_DB_AT_ALL 39 -- Use --detailed to see the previous full version -- Expanded unittests for Assessment		2013-03-05 11:51:38 -05:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	Revert push from stable (I forgot that pushing from stable overwrites current unstable changes)	2013-03-05 09:06:02 -05:00
public	Cleaning up hilarious exception messages	2013-03-04 16:52:22 -05:00
settings	Haplotype/Allele based optimizations for the HaplotypeCaller that knock off nearly 20% of the total runtime (multi-sample).	2013-02-21 10:14:11 -05:00
.gitignore	Fixing the licensing scripts	2013-01-26 13:42:49 -05:00
build.xml	Ant target to package a GATK jar with private included	2013-03-01 15:33:59 -05:00
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