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Commits on Sep 22, 2014

• typo

  

  arq5x

  committed
  5281788

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• added support for structural variants in VCF format. Integration with speedseq.

  

  arq5x

  committed
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Commits on Aug 26, 2014

• Merge branch 'master' of github.com:arq5x/gemini

  roryk

  committed
  0ea24cb

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• Explicitly set ref alt ordering for TPED id.

  roryk

  committed
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Commits on Aug 14, 2014

• [BUG] fix for multiple wildcards on same column. Many thanks to Tommaso Pippucci at the UWCMG course\!

  

  arq5x

  committed
  1ce0a2d

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Commits on Aug 4, 2014

• Fix TPED output.

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  roryk

  committed
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Commits on Jun 20, 2014

• more wildcard tests, mo better docs, and mo better whitespace tolerance

  

  arq5x

  committed
  31568cc

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• allow genotype wildcards nested within parens. regex hell for me.

  

  arq5x

  committed
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Commits on Jun 16, 2014

• remove debuggin comments

  

  arq5x

  committed
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• added new unit tests for all, any, none, count logic

  

  arq5x

  committed
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Commits on Jun 9, 2014

• full support for wildcard operations. need tests.

  

  arq5x

  committed
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Commits on Jun 3, 2014

• first pass

  

  arq5x

  committed
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Commits on May 28, 2014

• [ENH] genotype wildcards in SELECT

  

  arq5x

  committed
  7a30349

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Commits on May 20, 2014

• improved wildcards. whitespace allowed, unified syntax. updated docs.

  

  arq5x

  committed
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Commits on May 16, 2014

• [DOC] added docs for wildcards.

  

  arq5x

  committed
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Commits on May 9, 2014

• be more careful with eval()

  

  arq5x

  committed
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Commits on Mar 10, 2014

• bug-fix for region tool; fixes unit tests 1-3, 5

  

  udp3f

  committed
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Commits on Feb 4, 2014

• better support for the gene column

  

  arq5x

  committed
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Commits on Jan 21, 2014

• add num_hom_ref to stats tool under summarize

  

  udp3f

  committed
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Commits on Jan 14, 2014

• handle when INFO is not loaded.

  

  arq5x

  committed
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Commits on Jan 12, 2014

• Tweak to flatten arrays inside var.INFO OrderedDict

  dgaston

  committed
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Commits on Jan 11, 2014

• Clean up and removal of variables no longer needed

  dgaston

  committed
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Commits on Jan 10, 2014

• Reverted to storing Info as pickled OrdredDict object

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  dgaston

  committed
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Commits on Jan 6, 2014

• [ENH] --dgidb: query DGIdb for drug-gene interaction info.

  

  arq5x

  committed
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Commits on Jan 2, 2014

• typo

  

  arq5x

  committed
  431100d

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• typo

  

  arq5x

  committed
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Commits on Nov 7, 2013

• Added --show-families option to query output.

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  roryk

  committed
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Commits on Nov 6, 2013

• Fixed display error when using --carrier-status-by-phenotype

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  roryk

  committed
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Commits on Oct 30, 2013

• Fixed error with JSON formatting.

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  roryk

  committed
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Commits on Oct 25, 2013

• Merge branch 'master' of github.com:arq5x/gemini

  roryk

  committed
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• Added --carrier-summary-by-phenotype.

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  roryk

  committed
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Commits on Oct 22, 2013

• [BUG] allow individual sample info from gt_* columns to be JSON serializable.

  

  arq5x

  committed
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Commits on Oct 4, 2013

• Fixed variant_samples etc all showing up when not requested.

  roryk

  committed
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Commits on Sep 19, 2013

• Merge correct branch for GeminiQuery API changes:

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  roryk

  committed
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• GeminiQuery API changed to allow for filtering of variants

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  roryk

  committed
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