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[bioontology-support] Equivalent classes showing as duplicates in BioPortal

Joachim Baran joachim.baran at
Mon Jun 23 14:25:26 PDT 2014


  I think I am actually asking for less. My ontology would render better if
external ontologies would not be imported and class equivalences were


On 23 June 2014 12:00, Paul R Alexander <palexander at> wrote:

> We handle class equivalencies appropriately in the context that we
> operate, which is that we don’t perform (much) reasoning on the submitted
> ontologies. We basically only reason enough to provide a hierarchy, which
> is why the equivalent classes show up with the same subClassOf
> relationships. However, we don’t do any reasoning beyond this so other
> properties remain distinct between the classes.
> Tracking imports is extremely complex using the toolchain that we have in
> place. Though we’re always on the lookout for ways to accommodate this, it
> isn’t something we’ll be supporting any time soon.
> Best,
> Paul
> On Jun 22, 2014, at 9:49 AM, Joachim Baran <joachim.baran at>
> wrote:
> Hello,
>   I have just uploaded GFVO to BioPortal and it looks like class
> equivalences are not handled properly. Just like in Protege, classes that
> are equivalent to each other are shown separately. This will look like
> duplicates to users (seeing "Name", "name", "Label", "label", etc.), where
> only hovering over the link reveals where these classes are coming from.
>   Having said that, it would also be great to highlight which classes are
> defined in the ontology that was uploaded, in contrast to the classes that
> were imported.
> Thanks,
> Kim
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