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Commits on Oct 16, 2014

• somatic fusion detection

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Commits on Oct 4, 2014

• fixed IMPRECISE import

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Commits on Oct 3, 2014

• fixed evidence type annotation. also added strandedness to single line SVs for internal use

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• strand must reflect both breakends for completeness

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Commits on Oct 2, 2014

• cleared stringent defaults from set_somatic

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Commits on Sep 22, 2014

• fixed SV strandedness

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• KISS

  

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• .

  

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• more better fusion.

  

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• missing file

  

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• remove debugging statement

  

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• add prototype tool for fusion gene detection.

  

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• only annotate variants <= 50Kb

  

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• add index for sv_event_id

  

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• typo

  

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

  

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Commits on Sep 19, 2014

• dev 0.11.0a

  

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• v0.10.1

  

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• Merge pull request #330 from lbeltrame/use-shutil-for-rename

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• typo

  

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• fix merge conflicts

  

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Commits on Sep 18, 2014

• Support for fitCons: indicator of potential for interesting function in genomic variants

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Commits on Sep 15, 2014

• Use shutil.move rather than os.rename to prevent errors like invalid

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Commits on Aug 26, 2014

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

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• Explicitly set ref alt ordering for TPED id.

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• update to latest versions of clinvar, dbsnp and cosmic

  

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• update for new versions

  

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Commits on Aug 24, 2014

• bump to 0.10.1a

  

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• v0.10.0

  

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

  

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• A basic tool for Mendelian violations.

  

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Commits on Aug 23, 2014

• change versioned_installations path to Aarons repository

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• Additional back compatibility check to avoid errors if annotation_dir argument not present #321

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• Merge pull request #321 from bgruening/annotation-dir

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Commits on Aug 22, 2014

• Add a new argument to specify a specific gemini version. This will fetch a pre-defined list of dependencies with hard version contraints.

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