gatk3的最后一个经典版本3.8

Mauricio Carneiro f0c81b59b0 Implementation of the new BQSR plotting infrastructure ... * removed low quality bases from the recalibration report. * refactored the Datum (Recal and Accuracy) class structure * created a new plotting csv table for optimized performance with the R script * added a datum object that carries the accuracy information (AccuracyDatum) for plotting * added mean reported quality score to all covariates * added QualityScore as a covariate for plotting purposes * added unit test to the key manager to operate with one required covariate and multiple optional covariates * integrated the plotting into BQSR (automatically generates the pdf with the recalibration tearsheet)		2012-04-17 19:23:55 -04:00
licensing	Licenses for GATK 1 and 2 beta	2012-04-17 11:40:02 +01:00
public	Implementation of the new BQSR plotting infrastructure	2012-04-17 19:23:55 -04:00
settings	Rev. tribble to fix BED codec bug in tribble 51	2012-01-17 16:40:26 -05:00
.gitignore	Minor additions to the shared .gitignore file, now that Mark has checked one in.	2011-10-26 12:24:28 -04:00
LICENSE	Updated license year	2012-03-27 14:32:02 -04:00
build.xml	Added function to get bases from the current base forward in the window in ReferenceContext	2012-04-06 16:07:46 -04:00
ivy.xml	S3 upload now directly creates the XML report in memory and puts that in S3	2012-01-29 15:14:58 -05:00