depristo bdd0a6f9fa change to make build work ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1511 348d0f76-0448-11de-a6fe-93d51630548a		2009-09-03 13:43:10 +00:00
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TabularDataTest.dat	Revised ROD system. Split the system in Basic type and interface. Enabled more control over rod accessing, including an initialize() function to fetch headers and other options from the file. Added general tabular rod, which has a named columns and supports a map<String,String> interface. Comes with shiny new Junit system for RODs. Also, added simple python script for accessing picard data.	2009-05-14 21:06:28 +00:00
TabularDataTest2.dat	Better interface to the tabular ROD, now makes writing files easier. Also has corresponding test files	2009-05-14 23:20:11 +00:00
ValidatingPileupTargets.list	change to make build work	2009-09-03 13:43:10 +00:00
defaultGATKConfig.cfg	Apprach v2. Added python analysis script, so java no longer must be used to analyses quality score data. About to refactor out lots of unneeded code	2009-06-20 16:00:23 +00:00
exampleBAM.bam	Derive examples from real data.	2009-07-10 04:21:37 +00:00
exampleBAM.bam.bai	Derive examples from real data.	2009-07-10 04:21:37 +00:00
exampleFASTA.dict	Derive examples from real data.	2009-07-10 04:21:37 +00:00
exampleFASTA.fasta	Derive examples from real data.	2009-07-10 04:21:37 +00:00
exampleFASTA.fasta.fai	Derive examples from real data.	2009-07-10 04:21:37 +00:00
gFFTest.gff	Skeleton of new directory structure.	2009-03-11 20:05:05 +00:00
logisticParamsTest.list	Basic logistic regression support for calibrating qualities; mostly for Andrew to experiment with	2009-04-24 19:09:50 +00:00
recalConfig_1KG.cfg	I've pulled out the functionality of the analyzer into a single python file which doesn't require all of the irrelevant config parameters (which would cause problems for external users). I'll release this and the simple config file to 1KG for use in analyzing recalibration efforts.	2009-08-11 02:56:43 +00:00