search

SciCrunch / NIF-Ontology

NIF Standard Ontologies (NIFSTD)
Creative Commons Attribution 4.0 International
53 stars 17 forks source link

Provenance #195

Open memartone opened 4 years ago

memartone commented 4 years ago

I still don't see any references associated with any of the phenotypic statements or the class names from Huang etc. We say we provide provenance but we don't. We at least have to provide the full reference for the EBMs. But ideally, we should include the provenance for the individual phenotypes I included in the notes field for the CUTs. Is that something that Monique can do?

memartone commented 4 years ago

When you come in today (which should have been already), let us go back to setting up the computer so I can edit the ontology directly. I think it will be faster to put these in by hand.

tgbugs commented 4 years ago

The provenance is provided as part of the annotations on the ontology header section. The doi for the model source is also listed. The technical details of the conversion are the python file that implements the conversion, we can explain the general approach, but the code is the source of truth. This is why having computable representations is critical, because Figure S7 is always going to be that pdf page.

memartone commented 4 years ago

Where can I find this in Protege?

On Jan 7, 2020, at 12:28 PM, Tom Gillespie notifications@github.com wrote:

The provenance is provided as part of the annotations on the ontology header section https://github.com/SciCrunch/NIF-Ontology/blob/4c15ef266f77620e7a08e33042c1ba049af65f53/ttl/generated/neurons/huang-2017.ttl#L20. The doi for the model source is also listed https://github.com/SciCrunch/NIF-Ontology/blob/4c15ef266f77620e7a08e33042c1ba049af65f53/ttl/generated/neurons/huang-2017.ttl#L26. The technical details of the conversion are the python file that implements the conversion, we can explain the general approach, but the code is the source of truth. This is why having computable representations is critical, because Figure S7 is always going to be that pdf page.

— 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/195?email_source=notifications&email_token=ABSGOPJYEMMRWXSDLSHVPZ3Q4TQVVA5CNFSM4KD5QBE2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEIKFEIA#issuecomment-571757088, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABSGOPOUPUHHYTTUFY2KZW3Q4TQVVANCNFSM4KD5QBEQ.