Include transform of Biolink

Knowledge-Graph-Hub / kg-obo

A package to transform all OBO ontologies into KGX TSV format and OBO json, and put the transformed graph in KGhub

https://knowledge-graph-hub.github.io/kg-obo/getting_started.html

GNU General Public License v3.0

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Include transform of Biolink #197

Open caufieldjh opened 1 year ago

caufieldjh commented 1 year ago

Describe the desired behavior

In a KG construction crew meeting on Dec 12 2022, we discussed how it may be useful to have a topological representation of the Biolink model. This sounds like a case for KG-OBO, though:

it's not an OBO ontology
has a different structure than the OBO ontology graphs
doesn't natively have an OWL serialization (but there's a TTL)

Additional context

See the OWL on Bioportal: https://bioportal.bioontology.org/ontologies/BIOLINK

caufieldjh commented 1 year ago

This is currently done here: https://github.com/LucaCappelletti94/kg-biolink (but not made available through KG-OBO or KG-Hub, which may be nice, so I'll leave the issue open)

justaddcoffee commented 1 year ago

@LucaCappelletti94 @caufieldjh what do you think about moving this kg to kg-hub? How big a lift would this be?

LucaCappelletti94 commented 1 year ago

It really depends on how you would like to structure the KG - I made an attempt that seemed to somewhat work that I needed to add a topological aspect to the node type and edge type features.