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[bioontology-support] Software Ontology

Natasha Noy noy at stanford.edu
Thu Dec 3 10:16:42 PST 2009


Hi James,

We store mappings separate from the ontologies, so having those  
mappings won't prevent software ontology or EFO from standing on their  
own. If you could provide us with a CSV file, or some other file with  
the mappings, we can upload them after uploading the ontology.

Thanks!

Natasha


On Dec 3, 2009, at 10:01 AM, James Malone wrote:

> Hi Trish,
>
> Great thanks! We're uploading it in a separate subfolder on the EFO  
> SourceForge site here http://efo.svn.sourceforge.net/viewvc/efo/trunk/src/softwareontologyinowl/InferredSWOOWLview/SWO_inferred.owl
> (that is the head link to the most recent file)
>
> I can generate the mappings between EFO classes, IAO classes and the  
> SWO classes - actually in several cases we use the mappings straight  
> from IAO and EFO so no mapping is required.  I would rather have  
> this as sep from EFO I think so that people can use it in isolation  
> (like OBI) if they choose. We're a bit short on docs at the moment  
> but I can get some written up soon!  Just wanted to get this Beta  
> version out for public inspection as we've had some requests for it.
>
> Cheers,
>
> James
>
>
>
>
>
> Trish Whetzel wrote:
>> Hi James,
>>
>> Very much interested to see the Software Ontology. Has the location  
>> of this ontology been included in your SVN repository file for the  
>> automatic pull?
>> ***Misha, can you confirm if anything additional to the repository  
>> file is needed to include this ontology in the automatic pull?
>>
>> James, do you have mappings generated for the Software Ontology?  
>> Also, would it make sense to load this as a 'view' of EFO - is this  
>> a subset of EFO or does this extend from the software class in EFO?  
>> I can talk to via Skype about views further if you like.
>>
>> Trish
>>
>>
>>
>> On Dec 3, 2009, at 9:17 AM, James Malone wrote:
>>
>>> Hi,
>>>
>>> We have had a project working on creating a software ontology that  
>>> we needed for a branch of EFO. We've kept it separate though so it  
>>> can be reused as separate ontology. I'd like to get this Software  
>>> Ontology uploaded to BioPortal if possible please!  I've uploaded  
>>> to our public SVN, but can you let me know what details you  
>>> require for me to get it uploaded to BioPortal. I guess you might  
>>> need some extra bits like a description etc.
>>>
>>> Many thanks in advance!
>>>
>>> James
>>>
>>> -- 
>>> European Bioinformatics Institute, Wellcome Trust Genome Campus,  
>>> Hinxton, Cambridge, CB10 1SD, United Kingdom
>>> Tel: + 44 (0) 1223 494 676
>>> Fax: + 44 (0) 1223 492 468
>>> _______________________________________________
>>> bioontology-support mailing list
>>> bioontology-support at lists.stanford.edu
>>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>
>
> -- 
> European Bioinformatics Institute, Wellcome Trust Genome Campus,  
> Hinxton, Cambridge, CB10 1SD, United Kingdom
> Tel: + 44 (0) 1223 494 676
> Fax: + 44 (0) 1223 492 468
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/bioontology-support




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