gatk-3.8

Author	SHA1	Message	Date
rpoplin	2b51cf18f0	AnalyzeAnnotations now outputs plots with log x-axis in addition to standard x-axis so things like DP and MQ0 are easier to see. AnalyzeAnnotations now skips over all annotations that aren't floating point values. Recalibrator now warns users if PL tags are missing and so therefore it is reverting to illumina. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2681 348d0f76-0448-11de-a6fe-93d51630548a	2010-01-25 19:39:18 +00:00
rpoplin	a11503819a	AnalyzeAnnotations now breaks out its TiTv plots into novel SNPs, dbSNP sites, and combined. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2659 348d0f76-0448-11de-a6fe-93d51630548a	2010-01-22 19:00:23 +00:00
rpoplin	d9df72e1b5	AnalyzeAnnotations now bins variants per each annotation and outputs plots of TiTv ratio as a function of the annotation's value. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2654 348d0f76-0448-11de-a6fe-93d51630548a	2010-01-21 21:15:11 +00:00