kshakir 8d294dd6e6 For the snps to create combine snps and filtered indels, now using a VCF with just snps instead of vcf with snps plus unfiltered indels. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5904 348d0f76-0448-11de-a6fe-93d51630548a		2011-05-29 04:17:18 +00:00
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core	Added the R script for VQSR	2011-05-27 21:56:56 +00:00
examples	When /etc/mailname is unreadable fall back to the hostname.	2011-04-11 20:22:44 +00:00
lib	Thanks to mark: VCFInfoToTable removed in favor of a more flexible walker. Slight change to the argument structure of the walker to make it play more nicely with Queue: the field list parsing is pushed into the command line system (e.g. the variable is exposed as a List<String> and not a String, so Queue doesn't have to join a list into a string only to have it broken out again. This also allows the user to specify -F field1 -F field2 -F field3 if he/she so desires.	2010-12-15 03:33:36 +00:00
oneoffs	Two intermediate commits, to work over the weekend.	2011-05-27 22:03:08 +00:00
playground	For the snps to create combine snps and filtered indels, now using a VCF with just snps instead of vcf with snps plus unfiltered indels.	2011-05-29 04:17:18 +00:00