gatk3的最后一个经典版本3.8

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Valentin Ruano-Rubio 08f92bb6f9 Added AnalyzeCovariates tool to generate BQSR assessment quality plots. Implemtation details: * Added tool class .AnalyzeCovariates Added convenient addAll method to Utils to be able to add elements of an array. * Added parameter comparison methods to RecalibrationArgumentCollection class in order to verify that multiple imput recalibration report are compatible and comparable. * Modified the BQSR.R script to handle up to 3 different recalibration tables (-BQSR, -before and -after) and removed some irrelevant arguments (or argument values) from the output. * Added an integration test class.		2013-06-19 14:38:02 -04:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	Added AnalyzeCovariates tool to generate BQSR assessment quality plots.	2013-06-19 14:38:02 -04:00
public	Added AnalyzeCovariates tool to generate BQSR assessment quality plots.	2013-06-19 14:38:02 -04:00
settings	Rev picard, sam-jdk, tribble, and variant to version 1.91.1453	2013-05-07 14:21:15 -04:00
.gitignore	Detect stuck lock-acquisition calls, and disable file locking for tests	2013-04-24 22:49:02 -04:00
README.md	Create README.md	2013-06-17 16:03:45 -03:00
build.xml	Restore scala compilation by default in build.xml	2013-05-31 11:28:29 -04:00
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

README.md

gsa-unstable

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