droazen 9b90e9385d Putting new association files, some qscripts, and the new pick sequenom probes file under local version control. I notice some dumb emacs backup files, I'll kill those off momentarily. Also minor changes to GenomeLoc (getStartLoc() and getEndLoc() convenience methods) ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@6034 348d0f76-0448-11de-a6fe-93d51630548a		2011-06-22 22:53:37 +00:00
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old	Walkers can now specify a class extending from Gatherer to merge custom output formats. Add @Gather(MyGatherer.class) to the walker @Output.	2011-03-24 14:03:51 +00:00
BatchMerge.q	Moving this script out of playground while I figure out what's going on.	2011-05-23 17:48:44 +00:00
BootstrapCalls.q	Walkers can now specify a class extending from Gatherer to merge custom output formats. Add @Gather(MyGatherer.class) to the walker @Output.	2011-03-24 14:03:51 +00:00
ExomeVQSR.q	Putting new association files, some qscripts, and the new pick sequenom probes file under local version control. I notice some dumb emacs backup files, I'll kill those off momentarily. Also minor changes to GenomeLoc (getStartLoc() and getEndLoc() convenience methods)	2011-06-22 22:53:37 +00:00
Exome_VQSR_FullSearch.q	Renaming ContrastiveRecalibrator --> VariantRecalibrator in preparation for move to core	2011-05-03 18:12:47 +00:00
Phase1WholeGenome.scala	Putting new association files, some qscripts, and the new pick sequenom probes file under local version control. I notice some dumb emacs backup files, I'll kill those off momentarily. Also minor changes to GenomeLoc (getStartLoc() and getEndLoc() convenience methods)	2011-06-22 22:53:37 +00:00
RFAPipeline.q	Putting new association files, some qscripts, and the new pick sequenom probes file under local version control. I notice some dumb emacs backup files, I'll kill those off momentarily. Also minor changes to GenomeLoc (getStartLoc() and getEndLoc() convenience methods)	2011-06-22 22:53:37 +00:00
RefineGenotypesAndMerge.q	Removed unused importants, but some of these scripts are now out of date (they have been for a long time) so they don't compile anyway	2011-05-22 18:43:48 +00:00
ScatterGatherAssociation.q	Queue graph time is currently of O(n^m) where n = num jobs, m = num unique base files. This script therefore was running in order 1200^16, which I don't think would finish before the heat death of the universe. For now, push down the number of files to 1 and gather them outside of Queue, once I've fixed up scatter-gather in core, outputs can be uncommented.	2011-04-21 12:56:25 +00:00
expanded_targets.q	Removed unused importants, but some of these scripts are now out of date (they have been for a long time) so they don't compile anyway	2011-05-22 18:43:48 +00:00
fullCallingPipelineV2.q	Refactoring the qscript directory; oneoffs, playground, and core	2011-01-19 15:23:40 +00:00
omni_qc.q	Removed unused importants, but some of these scripts are now out of date (they have been for a long time) so they don't compile anyway	2011-05-22 18:43:48 +00:00
private_mutations.q	Removed unused importants, but some of these scripts are now out of date (they have been for a long time) so they don't compile anyway	2011-05-22 18:43:48 +00:00