kiran 11e85f1969 Four-base mode now estimates the genotype using the one-base method and retests the site if the one-base method suggests the site is a het. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@503 348d0f76-0448-11de-a6fe-93d51630548a		2009-04-23 17:23:24 +00:00
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fourbasecaller	Intermediate commit. Refactored some simple base manipulation stuff into BaseUtils.java. Generalized some likelihood computation logic to make future possible EM-ing easier.	2009-04-15 04:18:07 +00:00
gatk	Four-base mode now estimates the genotype using the one-base method and retests the site if the one-base method suggests the site is a het.	2009-04-23 17:23:24 +00:00
illumina	Make output type identical to the bustard parser so the values can be easily swapped for one another.	2009-04-09 20:49:34 +00:00
indels	Fixed SLOWNESS issue.	2009-04-17 20:10:34 +00:00
samples	Added a sample xml marshaller / unmarshaller.	2009-04-07 22:28:16 +00:00
utils	When checking that values are not infinite, also prints out the position so that I know which site was giving the error and I can just go there and debug it.	2009-04-23 17:21:58 +00:00
ValidateSAM.java	generic declarations added here and there to eliminate a few annoying warnings; no consequential changes	2009-04-02 20:53:01 +00:00