ebanks e413882302 Generalizing the SequenomValidationConverter to be able to take in any arbitrary rod type (provided it can be converted to VariantContext). ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3155 348d0f76-0448-11de-a6fe-93d51630548a		2010-04-12 20:42:18 +00:00
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annotator	Heads up everyone:	2010-04-09 05:37:25 +00:00
concordance	Fixing/cleaning up the vcf merge util	2010-03-19 15:13:32 +00:00
fasta	Fix off-by-one error in original implementation of read sharding. Tested by	2010-03-06 18:52:53 +00:00
filters	Moving VariantFiltration over to use VariantContext.	2010-03-19 18:35:23 +00:00
genotyper	Adding performance tests for the indel realigner; should take ~3 hours.	2010-04-11 04:45:22 +00:00
indels	Adding performance tests for the indel realigner; should take ~3 hours.	2010-04-11 04:45:22 +00:00
recalibration	Adding performance tests for the indel realigner; should take ~3 hours.	2010-04-11 04:45:22 +00:00
sequenom	Generalizing the SequenomValidationConverter to be able to take in any arbitrary rod type (provided it can be converted to VariantContext).	2010-04-12 20:42:18 +00:00
varianteval	added a performance test build option (for the upcoming performance test suite), and added a sample performance test for VariantEval.	2010-04-08 15:37:15 +00:00
DepthOfCoverageIntegrationTest.java	Added an auxiliary table to DepthOfCoverage, which is the cumulative equivalent of the locus table (got tired of doing the calculation by hand). Also took care of a trailing tab in the per-locus output table.	2010-04-08 19:37:17 +00:00
PileupWalkerIntegrationTest.java	Now that we changed how deletions are represented, got to update MD5...	2009-12-30 22:00:58 +00:00
PrintReadsWalkerUnitTest.java	A long overdue correction; all unit tests now end in 'UnitTest'. This was something we wanted to do for a while, and now with the performance tests coming, it was a good time to clean-up. Please label any new test appropriately: *UnitTest and *IntegrationTest are the two valid file name patterns for tests.	2010-04-08 06:14:15 +00:00
VariantsToVCFIntegrationTest.java	Removed outdated Sequenom rod and renamed HapMapGenotypeROD to HapMapROD.	2010-04-11 01:43:07 +00:00