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SciCrunch / NIF-Ontology

NIF Standard Ontologies (NIFSTD)
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What are these temporary IDs? And where can I find the compact ID's #217

Open memartone opened 4 years ago

memartone commented 4 years ago

hasTemporaryId ilxtr-NeuronHuang2017-0-ilxtr-hasExpressionPhenotype-NCBIGene-12308-0-ilxtr-hasExpressionPhenotype-NCBIGene-20604-0-ilxtr-hasInstanceInTaxon-NCBITaxon-10090-0-ilxtr-hasNeurotransmitterPhenotype-CHEBI-16865-0-ilxtr-hasSomaLocatedIn-UBERON-0001950

tgbugs commented 4 years ago

Has temporary id is the id generated deterministically from the bag of phenotypes. The compact ids are subjects of all the triples, of course Protege completely fails to make those accessible anywhere in the interface except in the little strip above class annotations in the entities tab (sigh). I can add them as an annotation property if that would help. protege-ids

memartone commented 4 years ago

For the other ontologies, I can show the compact ID, e.g., UBERON:XXXX, but we are not showing the namespace, just the number. Can that be fixed? I thought we settled on NPOKB.

On Aug 20, 2020, at 11:34 AM, Tom Gillespie notifications@github.com wrote:

Has temporary id is the id generated deterministically from the bag of phenotypes. The compact ids are subjects of all the triples, of course Protege completely fails to make those accessible anywhere in the interface except in the little strip above class annotations in the entities tab (sigh). I can add them as an annotation property if that would help. https://user-images.githubusercontent.com/4299776/90811150-f9cd0e00-e2d8-11ea-9de6-c0a0e272606a.png — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/SciCrunch/NIF-Ontology/issues/217#issuecomment-677829528, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABSGOPPXJ4BTF3BNHH44BRLSBVUDZANCNFSM4QFN3LZA.

tgbugs commented 4 years ago

I think that is a protege issue. I will add the compact id as an annotation property, they are of the form npokb:123.

memartone commented 4 years ago

perfect. I’ll add to the manuscript.

On Aug 21, 2020, at 12:30 PM, Tom Gillespie notifications@github.com wrote:

I think that is a protege issue. I will add the compact id as an annotation property, they are of the form npokb:123.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/SciCrunch/NIF-Ontology/issues/217#issuecomment-678455573, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABSGOPOWBCI4IYVTP4EIUNTSB3DO7ANCNFSM4QFN3LZA.