fromer d775192631 Check if MNP annotation of amino acid is dependent on the MNP, or could it be obtained through some single-base variant? ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4733 348d0f76-0448-11de-a6fe-93d51630548a		2010-11-24 22:38:33 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src	Check if MNP annotation of amino acid is dependent on the MNP, or could it be obtained through some single-base variant?	2010-11-24 22:38:33 +00:00
test	Overwhelming evidence that maxQ = 50 is now a better default than maxQ = 40 in the base quality score recalibrator, especially when combined with dbsnp build 132. Also, added option in ProduceBeagleInputWalker for Beagle-ing chromosome X calls with male samples which sets the genotype likelihood for the AB allele to zero for those samples.	2010-11-24 21:32:26 +00:00