2 Commits (ceeeec13b8bf0c28a47b0efb6198942d2be7a0e5)

Author	SHA1	Message	Date
depristo	819862e04e	major restructuring of generalized variant analysis framework. Now trivally easy to add additional analyses. Easy partitioning of all analyses by features, such as singleton status. Now has transition/transversional bias, counting, dbSNP coverage, HWE violation, selecting of variants by presence/absense in dbs. Also restructured the ROD system to make it easier to add tracks. Also, added the interval track -- if you provide an interval list, then the system autoatmically makese this available to you as a bound rod -- you can always find out where you are in the interval at every site. Python scripts improved to handle more merging, etc, into population snps. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@918 348d0f76-0448-11de-a6fe-93d51630548a	2009-06-05 23:34:37 +00:00
depristo	ce6a0f522b	First incarnation of the population-based SNP analysis tool. Also bug fixes throughout the GATK ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@845 348d0f76-0448-11de-a6fe-93d51630548a	2009-05-27 22:02:24 +00:00