waldronlab / BugSigDB

A microbial signatures database
https://bugsigdb.org
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LinkML for validating ontologies #136

Closed lwaldron closed 1 year ago

lwaldron commented 2 years ago

I recently became aware of the LinkML (https://linkml.io/) project for modeling and validating data. We may want to consider it as an alternative to having to import and maintain ontologies in bugsigdb.org, because a LinkML data model can for example, specify that an entry must belong to the Experimental Factory Ontology, and their validation tool can check that automatically without having to implement ontology validation locally. LinkML is an actively developed project eager to collaborate and I've met a couple of their developers, so it may also be worth thinking about a Semantic MediaWiki extension that could take advantage of their infrastructure more generally than just our use cases.

tosfos commented 2 years ago

Sounds cool. Would be an exciting project and should be doable.

tosfos commented 2 years ago

What's the status here, please?

lgeistlinger commented 1 year ago

Closing this until further notice