Mark DePristo 7c5c656b46 Uncovered fundamental accounting bug in VariantEval. Will be fixed by dev. team ... Problem is that Novelty sees multiple records at a site (SNP, INDEL) to calculate whether a site is novel, but VariantEvalWalker makes an arbitrary decision which to use for analysis and CompOverlap may not see a comp record of the same type as eval. So you get lines where the stratification is known but there are 10 novel sites!		2011-07-28 14:19:27 -04:00
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arguments	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
datasources	Cleaned up RefMetaDataTracker	2011-07-27 23:25:52 -04:00
executive	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
filters	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
iterators	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
refdata	Actually should have been gone...	2011-07-25 13:27:42 -04:00
report	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
traversals	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
walkers	Uncovered fundamental accounting bug in VariantEval. Will be fixed by dev. team	2011-07-28 14:19:27 -04:00
GenomeAnalysisEngineUnitTest.java	Fixing broken paths to the testdata directory throughout the codebase.	2011-06-29 17:36:47 -04:00
WalkerManagerUnitTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00