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GenomicsStandardsConsortium / mixs

Minimum Information about any (X) Sequence” (MIxS) specification
https://w3id.org/mixs
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update linkML with external links #873

Open only1chunts opened 4 days ago

only1chunts commented 4 days ago

We have FAIRSharing records for all of the MIxS checklist. Is it possible to add links to those into our LinkML? There may be an appropriate place holder in LinkML already for those sorts of things? But if not then I would suggest in the descriptions. Change whats currently displayed on the front page to be:

Checklist Description
MigsBa Minimal Information about a Genome Sequence: cultured bacteria/archaea FairSharing
MigsEu Minimal Information about a Genome Sequence: eukaryote FairSharing
MigsOrg Minimal Information about a Genome Sequence: organelle FairSharing
MigsPl Minimal Information about a Genome Sequence: plasmid FairSharing
MigsVi Minimal Information about a Genome Sequence: virus FairSharing
Mimag Minimum Information About a Metagenome-Assembled Genome FairSharing
MimarksC Minimal Information about a Marker Sequence: specimen FairSharing
MimarksS Minimal Information about a Marker Sequence: survey FairSharing
Mims Minimum Information about a Metagenome or Environmental Sequence FairSharing
Misag Minimum Information About a Single Amplified Genome FairSharing
Miuvig Minimum Information About an Uncultivated Virus Genome FairSharing

Note also - The update to the textual description of the MIMS entry

turbomam commented 1 day ago

Hi @only1chunts . Thanks for getting this down on paper.

I think I suggested assigning this to @sujaypatil96 because he is our LinkML documentation expert. But on further reflection, this linking shouldn't be added in the documentation generation phase, it should live in the schema itself, possibly as a mapping. Good news, @sujaypatil96 has been working on the rendering of mappings in docuemtation pages recently.

But we can also consider other LinkML slots to hold the relationship with FairSharing terms in the TWG meeting tomorrow (and assign somebody)

I would give this the "good first issue" label if we had that in this MIxS repo!

turbomam commented 1 day ago

mappings have subtypes which adds some semantic clarity. Since the value of mapping relationship is a CURIes or URL, we assume the source is embedded in the value

https://linkml.io/linkml-model/latest/docs/mappings/