This is specifically relevant to KG-COVID-19 and its newer clinical data additions, but potentially to any KG containing representations of clinical observations.
We would like to be able to produce Phenopackets from the graph nodes/edges.
Since the KGs contain all data in just two files rather than spread out amongst a bunch of tables, this is an excellent opportunity to parse those files directly to a standard set of schema.
Describe the desired behavior
This is specifically relevant to KG-COVID-19 and its newer clinical data additions, but potentially to any KG containing representations of clinical observations. We would like to be able to produce Phenopackets from the graph nodes/edges. Since the KGs contain all data in just two files rather than spread out amongst a bunch of tables, this is an excellent opportunity to parse those files directly to a standard set of schema.
Additional context
See https://phenopacket-schema.readthedocs.io/en/latest/ and https://github.com/phenopackets/phenopacket-schema