depristo
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681c196097
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V2 of VariantEval2. Framework is essentially complete., very simple and clear now compared to VE1. Support for any number of JEXL expressions. dbSNP% evaluation added to show paired comparison evaluation. Pretty printing output tables. Performance is poor but can easily be fixed (see todo notes).
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2764 348d0f76-0448-11de-a6fe-93d51630548a
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2010-02-02 14:18:46 +00:00 |
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depristo
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d9671dffba
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Documentation for VariantContext. Please read it and start using it.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2756 348d0f76-0448-11de-a6fe-93d51630548a
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2010-02-01 17:49:51 +00:00 |
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depristo
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f6bca7873c
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V3 of VariantContext. Support for Genotypes and NO_CALL alleles. QUAL fields fully implemented. Can parse VCF records and dbSNP. More complete validation. Detailed testing routines for VariantContext and Allele.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2718 348d0f76-0448-11de-a6fe-93d51630548a
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2010-01-28 04:10:16 +00:00 |
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depristo
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3399ad9691
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Incremental update 2 -- refined allele and VariantContext classes; support for AttributedObject class; extensive testing for Allele class, and partial for VariantContext. Now possible to easily convert dbSNP to VariantContext.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2705 348d0f76-0448-11de-a6fe-93d51630548a
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2010-01-27 17:19:37 +00:00 |
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depristo
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c231547204
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Refactoring and migration of new allele/variantcontext/genotype code into oneoffprojects. NOT FOR USE. PlinkRod commented out due to dependence on this new, rapidly changing interface.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2687 348d0f76-0448-11de-a6fe-93d51630548a
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2010-01-26 13:53:29 +00:00 |