biolink-model
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biolink
Schema and generated objects for biolink data model and upper ontology
There are many mappings from biolink predicates to FMA terms. They mostly look like readable identifiers. ``` FMA:connected_to FMA:continuous_with FMA:homonym_of ``` Using the expansion in biolink_model_prefix_map.json, these get expanded to...
**Is your feature request related to a problem? Please describe.** [biolink:CommonDataElement](https://biolink.github.io/biolink-model/CommonDataElement/) (CDE) is great (as proposed in https://github.com/biolink/biolink-model/issues/1096)! But CDEs are often administered as case report forms (CRFs), questionnaires, forms...
**Describe the bug** The current value associated with the `biolink `prefix returns a 404 (`biolink: 'https://w3id.org/biolink/vocab/'`). If I try to access `biolink:Gene` or `import biolink:biolink-model` I get a 404. If...
CC0 is not a recommended license for software like biolink and linkML and limits adoption and usage. From: https://creativecommons.org/faq/#can-i-apply-a-creative-commons-license-to-software _We recommend against using Creative Commons licenses for software. Instead, we...
**Is your feature request related to a problem? Please describe.** On NCATS Translator https://github.com/NCATSTranslator/Feedback/issues/586, we've been trying to figure out what Biolink class to map [UMLS semantic type T028 "Gene...
On the [Article](https://biolink.github.io/biolink-model/docs/Article.html) documentation page the `xref` slot is mentioned as [inherited from gene product mixin](https://biolink.github.io/biolink-model/docs/Article.html#inherited-from-gene-product-mixin). In the current model, it is a slot of [NamedThing](https://github.com/biolink/biolink-model/blob/master/biolink-model.yaml#L5627) and [Publication](https://github.com/biolink/biolink-model/blob/master/biolink-model.yaml#L5967), as well...
There are a number of issues present that I think, indicate that there are multiple children of the sequence variant entity. When I go to browse the model (https://biolink.github.io/biolink-model/), the...
I notice a difference between PMC and PMCID, and I'm wondering if this is intentional. I'm also not certain on which to use. Based on the [prefix-map](https://github.com/biolink/biolink-model/blob/68d4e3d7612275d0d7e832a9919bf8666e1d5fde/prefix-map/biolink-model-prefix-map.json#L147), it looks like:...
**Is your feature request related to a problem? Please describe.** The MolePro encountered a need to add to the [infores_catalog_nodes.tsv](https://github.com/biolink/biolink-model/blob/master/infores_catalog_nodes.tsv) **Describe the solution you'd like** We want to add the...
**Is your feature request related to a problem? Please describe.** In Inxight:Drugs we have relationships representing strains: [LACTOBACILLUS RHAMNOSUS HN001](https://drugs.ncats.io/drug/QZY9UX6YE5) `INFRASPECIFIC->PARENT ORGANISM` [Lacticaseibacillus rhamnosus](https://drugs.ncats.io/drug/9601IVB87J) **What working group (or team) did...
