rpoplin 7db9601c9d Checking in the 1000G phase1 cleaning and calling scripts for posterity's sake, but also to show everyone what the current best practices for VQSR training looks like. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5015 348d0f76-0448-11de-a6fe-93d51630548a		2011-01-19 14:32:52 +00:00
..
chartl	Removed stochasticity from IndelRealigner by random sampling using and seed based on the read list.	2011-01-07 22:03:36 +00:00
depristo	phasing per sample. tmp checkin	2010-12-22 20:14:06 +00:00
examples	Command lines for locally run Queue jobs no longer have to be escaped differently than bsub'ed jobs.	2011-01-10 21:07:29 +00:00
hanna	Trying out Queue for the first time.	2010-11-18 18:29:12 +00:00
kshakir	Checking in scripts used for testing the linear index MAX_FEATURES_PER_BIN.	2010-12-20 21:25:36 +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
rpoplin	Checking in the 1000G phase1 cleaning and calling scripts for posterity's sake, but also to show everyone what the current best practices for VQSR training looks like.	2011-01-19 14:32:52 +00:00
fullCallingPipeline.q	Removed stochasticity from IndelRealigner by random sampling using and seed based on the read list.	2011-01-07 22:03:36 +00:00
recalibrate.scala	- After removing special code for intervals, instead of being of type File they are generated as List[File]. Changed previous checkin that was appending to this list and instead assigning a singleton list.	2010-10-21 06:37:28 +00:00