gatk3的最后一个经典版本3.8

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Laura Gauthier ce5ecf1383 Enable contamination correction via downsampling (as for HaplotypeCaller), added test Add oxoG read count annotation and add as default annotation Add ##SAMPLE VCF header line in accordance with TCGA VCF spec, specifying "File" line in sample header with BAM file name and "SampleName" with BAM sample name (Don't print sample file path if --no_cmdline_in_header is specified to help with test consistency) Turn on active region assembly-based physical phasing for M2 Clean up M2-related annotations so UG doesn't crash if M2 annotations are called		2015-06-15 07:59:15 -04:00
licensing	Updated license information	2014-10-14 17:10:12 -04:00
protected	Enable contamination correction via downsampling (as for HaplotypeCaller), added test	2015-06-15 07:59:15 -04:00
public	Enable contamination correction via downsampling (as for HaplotypeCaller), added test	2015-06-15 07:59:15 -04:00
settings/helpTemplates	Numerous doc fixes; mostly formatting and clarifications	2015-05-03 00:28:46 +02:00
.gitignore	Fixed bug using GraphBased due to infinite likelihoods resulting from the calculation of alignment cost of very long insertion or deletions (done in linear scale)	2014-04-01 16:14:52 -04:00
README.md	Update README file for the 2.6 release	2013-06-20 13:08:29 -04:00
ant-bridge.sh	Added faster built executable, non-packaged jars.	2014-11-05 00:30:46 +08:00
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
pom.xml	Update pom versions to mark the start of GATK 3.5 development	2015-05-15 00:44:54 -04:00

README.md

The Genome Analysis Toolkit

See http://www.broadinstitute.org/gatk/