Mauricio Carneiro 6e6f0f10e1 BaseQualityScoreRecalibration walker (bqsr v2) first commit includes ... * Adding the context covariate standard in both modes (including old CountCovariates) with parameters * Updating all covariates and modules to use GATKSAMRecord throughout the code. * BQSR now processes indels in the pileup (but doesn't do anything with them yet)		2012-02-06 17:38:29 -05:00
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net/sf	Revving Picard to incorporate final version of ReadWalker performance improvements.	2012-01-10 12:12:33 -05:00
org/broadinstitute/sting	BaseQualityScoreRecalibration walker (bqsr v2) first commit includes	2012-02-06 17:38:29 -05:00