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vgteam / vg

tools for working with genome variation graphs
https://biostars.org/tag/vg/
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VG RDF use IRI in a GA4GH.org namespace #1736

Open JervenBolleman opened 6 years ago

JervenBolleman commented 6 years ago

The GA4GH steering committee has agreed that we can use IRIs for the VG RDF concepts in a domain hosted by the GA4GH.

We need to discuss the specific technical requirements with their team. GA4GH tech team suggests that they will redirect the iRI of an owl document to an appropriate server location.

An possible solution would look like

https://purl.ga4gh.org/semanticSchema/varationgraph

Redirects to

http://biohackathon.org/resource/variationgraph or obofoundry or any other hoster that can host such a file and do content negotiation.

JervenBolleman commented 6 years ago

An other option might be to submit this schema to OLS at EBI, at which point it would be in the EBI RDF platform which with lodestar can do content negotiation.

simonjupp commented 6 years ago

We're happy to host the OWL file in OLS. We're also planning to add content negotiation support to OLS that will forward requests for RDF syntaxes to the RDF platform.

adamnovak commented 6 years ago

Another place we can put things is under https://vgteam.github.io/.

Do we have an OWL file lying around that we just need to hoist somewhere? Or do we need to write an OWL file describing the VG RDF format?

JervenBolleman commented 6 years ago

We have the owl file and even a html file they are under https://github.com/vgteam/vg/tree/master/ontology. Key problem with gh-pages is that they don't do content negotiation, which is something that most linked data consumers expect. This is not a problem per-se as that is easy enough to do with the rewrite rules on nginx/apache. But I have not heard from the ga4gh tech team what they use. OLS can do that content negation as can bioportal etc...

On Tue, Jul 10, 2018 at 10:03 PM, Adam Novak notifications@github.com wrote:

Another place we can put things is under https://vgteam.github.io/.

Do we have an OWL file lying around that we just need to hoist somewhere? Or do we need to write an OWL file describing the VG RDF format?

— You are receiving this because you were assigned. Reply to this email directly, view it on GitHub https://github.com/vgteam/vg/issues/1736#issuecomment-403948313, or mute the thread https://github.com/notifications/unsubscribe-auth/AA8MFUmfcHlatG_1Y_QM7AOqjRP6Re32ks5uFQingaJpZM4UmyKK .

-- Jerven Bolleman me@jerven.eu