gatk3的最后一个经典版本3.8

Eric Banks 39c73a6cf5 1. Ryan and I noticed that the FisherStrand annotation was completely busted for indels with reduced reads; fixed. ... 2. While making the previous fix and unifying FS for SNPs and indels, I noticed that FS was slightly broken in the general case for indels too; fixed. 3. I also fixed a minor bug in the Allele Biased Downsampling code for reduced reads.		2013-01-18 03:35:48 -05:00
licensing	Cleaning CRLF terminations in the licenses	2013-01-10 17:06:29 -05:00
protected/java	1. Ryan and I noticed that the FisherStrand annotation was completely busted for indels with reduced reads; fixed.	2013-01-18 03:35:48 -05:00
public	I finally gave up on trying to get the Haplotype/Allele merging to work in the HaplotypeCaller.	2013-01-18 01:21:08 -05:00
settings	Final r119 tribble jar	2012-11-02 14:30:33 -04:00
.gitignore	adding some directories to gitignore	2012-09-27 11:09:41 -04:00
build.xml	Updating Queue maven version to 0.0.2	2013-01-10 13:46:49 -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	ReadBackedPileup cleanup	2013-01-11 15:17:18 -05:00