biolink-model
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biolink
Schema and generated objects for biolink data model and upper ontology
The Biolink model is currently using: `https://www.w3.org/TR/skos-reference/#` for the SKOS URI. The URI should be `http://www.w3.org/2004/02/skos/core#` (See: https://www.w3.org/TR/2009/REC-skos-reference-20090818/#L1368)
**Describe the bug** I'm following the README and make hangs while running jsonschema. Hours later, its still hanging. **To Reproduce** Vanilla Ubuntu 20.04 (Vagrant image `generic/ubuntu-20.04`) ``` sudo apt update...
Given the following yaml definition: ``` subject: is_a: association slot ... mappings: - rdf:subject - owl:annotatedSource - oban:association_has_subject ``` [context.jsonld](context.jsonld) is currently generated with: ``` "subject": { "@type": "@id", "@id":...
**Is your feature request related to a problem? Please describe.** I don't understand why `attribute` and `quantity value` are subclasses of Annotation. Annotation is not actually defined ("Biolink Model root...
From the Clinical WG: [new prefixes needed](https://github.com/TranslatorSRI/NodeNormalization/issues/79) https://athena.ohdsi.org/search-terms/start - typically used to find these identifiers. Sierra should follow up with @karafecho to coordinate additions
This would be a plain association connecting [Treatment](https://w3id.org/biolink/vocab/Treatment) to [Disease](https://w3id.org/biolink/vocab/Disease). Note that treatment itself would be connected to other objects like chemicals. Note the maxo association format includes an additional...
In NMDC we have a general [attribute value](https://microbiomedata.github.io/nmdc-schema/AttributeValue/) class from which quantity values, text values, images values, person values, etc. inherit. The attribute value class also has a `was generated...
Request from Text mining provider for more specific gene-to-GOTerm associations (ie: gene to molecular function, gene to biological process, gene to cellular component) associations as subclasses of gene-to-GOTerm association.