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Add miRBase groundings to GroundingMapper #918

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wants to merge 10 commits into from
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Add miRBase groundings to GroundingMapper #918

wants to merge 10 commits into from

Commits on Jul 21, 2019

  1. Add MIRBASE groundings to GroundingMapper 

    I did my best to follow the same procedure as when handling the UniProt grounding. 

Also switched some staticmethods over to classmethods to make the references a bit more elegant
    @cthoyt
    cthoyt authored Jul 21, 2019
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  2. Add test for standardizing MIRBASE and HGNC

    @cthoyt
    cthoyt authored Jul 21, 2019
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Commits on Jul 22, 2019

  1. Add miRBase checking to Agent.get_grounding() 

    Now this has higher priority than HGNC or UP in order to avoid possible conflicts with when the agent has both MIRBASE and HGNC identifiers in the db_refs
    @cthoyt
    cthoyt committed Jul 22, 2019
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  2. Reorder when checking for miRBase agent name

    @cthoyt
    cthoyt committed Jul 22, 2019
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  3. Fix typo in conditional

    @cthoyt
    cthoyt committed Jul 22, 2019
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  4. Update test to make sure name is standardized properly 

    Also fixed a typo in the miRNA name
    @cthoyt
    cthoyt committed Jul 22, 2019
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Commits on Aug 5, 2019

  1. Make HGNC have priority over mirbase for grounding an agent

    @cthoyt
    cthoyt committed Aug 5, 2019
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  2. Merge branch 'master' into patch-8

    @cthoyt
    cthoyt committed Aug 5, 2019
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  3. Add changes to new mapper module

    @cthoyt
    cthoyt committed Aug 5, 2019
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  4. Update test_groundingmapper.py

    @cthoyt
    cthoyt committed Aug 5, 2019
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