depristo
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672bee295c
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now plots tranches separately from optimizer
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4000 348d0f76-0448-11de-a6fe-93d51630548a
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2010-08-10 12:02:52 +00:00 |
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depristo
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41fee2d75e
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Publication tranches report is now the default output
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3967 348d0f76-0448-11de-a6fe-93d51630548a
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2010-08-07 13:58:59 +00:00 |
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depristo
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6ffcaa0afe
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Can run R scripts on the command line
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3750 348d0f76-0448-11de-a6fe-93d51630548a
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2010-07-09 00:13:18 +00:00 |
rpoplin
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290771a8c2
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Automatic cutting of recalibrated variant calls using ApplyVariantCuts. VariantRecalibrator produces the tranches plot alongside the optimization curve. Specify the levels using -tranche 1.0 -tranche 5.0 etc
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3472 348d0f76-0448-11de-a6fe-93d51630548a
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2010-06-02 15:03:00 +00:00 |
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rpoplin
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c78fc23ec5
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Minor updates to output of variant optimizer.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3031 348d0f76-0448-11de-a6fe-93d51630548a
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2010-03-18 12:46:47 +00:00 |
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rpoplin
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58a31bab6a
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Variant optimizer now outputs VCF files via ApplyVariantClustersWalker. Documentation to be added to the wiki. It is ready to be used by other people but only with great caution.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3028 348d0f76-0448-11de-a6fe-93d51630548a
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2010-03-17 20:41:42 +00:00 |
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rpoplin
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933823c8bc
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Removed the StingException when mkdir fails for Sendu in AnalyzeCovariates. Incremental updates to VariantOptimizer.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3013 348d0f76-0448-11de-a6fe-93d51630548a
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2010-03-16 19:45:02 +00:00 |