David Roazen 2794e5c1d4 Modified the VCFJarClassLoadingUnitTest to play nice with the packaged-jar test targets.		2011-10-25 14:47:15 -04:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	a)New variant eval stratification module for indel size. b) Next iteration on indel caller runtime optimization: when computing likelihood of each haplotype for a given read, many computations will be redundant since pieces of haplotypes will be common to both REF and ALT haplotypes. So, we keep HMM matrices from one haplotype to the next one and recompute starting at the part where either haplotype is different or GOP/GCP are different.	2011-10-25 09:56:43 -04:00
test	Modified the VCFJarClassLoadingUnitTest to play nice with the packaged-jar test targets.	2011-10-25 14:47:15 -04:00