corin 6d809321d3 Updating combien variants memory limit and dcov default for the full calling pipeline. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4907 348d0f76-0448-11de-a6fe-93d51630548a		2010-12-24 03:06:50 +00:00
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chartl	PrivatePermutations generalized to compute transition counts and average probabilities (and thus was renamed). Changes in some pipelines to reflect the change. Bugfix in the batch merging pipeline (it would halt because the allele VCF for genotyping batches could become off-spec).	2010-12-22 15:16:15 +00:00
depristo	phasing per sample. tmp checkin	2010-12-22 20:14:06 +00:00
examples	- 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
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	Committing my notes about the methods development pipeline so we stay synced up while I'm on vacation. Cheers.	2010-12-21 21:14:20 +00:00
fullCallingPipeline.q	Updating combien variants memory limit and dcov default for the full calling pipeline.	2010-12-24 03:06:50 +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