Eric Banks 7519484a38 Refactored PairHMM.initialize to first take haplotype max length and then the read max length so that it is consistent with other PairHMM methods.		2013-02-25 15:04:23 -05:00
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genotyper	Replace org.broadinstitute.variant with jar built from the Picard repo	2013-02-05 17:24:25 -05:00
pairhmm	Refactored PairHMM.initialize to first take haplotype max length and then the read max length so that it is consistent with other PairHMM methods.	2013-02-25 15:04:23 -05:00
recalibration	Cleanup and unit tests for QualityUtils	2013-02-16 07:31:37 -08:00
ContigComparatorUnitTest.java	Generalize and fixup ContigComparator	2013-02-09 09:52:13 -05:00