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I've been asked to provide feedback on OMIM changing its CURIEs to "MIM".
Looking at the primary GO upstream data (GAFs and GPADs), there does not appear to be any OMIM data that would need to be c…
kltm updated
7 months ago
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pyobo call made via code:
```python
from pyobo.sources.ncbigene import get_obo
def get_obo_file(output_path: str):
"""Get the obo file."""
obo_file = get_obo()
obo_file.write_obo…
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@lmichan and @CondeArcana333 seem to be interested in annotating various database pages on Wikidata with corresponding Bioregistry prefixes. It might be good to use something like https://github.com/S…
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Please create some dummy PURLs for the WWF ecoregions and export a table with the PURLs and the WWF ecoregion labels. There is moderate urgency. Thank you.
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See: https://github.com/bgyori/indra_cogex/actions/runs/4298454058/jobs/7492573390. For some reason compatible versions for some dependencies cannot be resolved resulting in a failed install. @cthoyt …
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From @colleenXu:
Is it a bit inconsistent for the prefix PHARMGKB.PATHWAYS to be plural like this (vs KEGG.PATHWAY)?
asking for clarification:
- is it more correct to have different prefixes for …
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Given:
- a TSV where some specified column is ID, and others are mapped to label, category, ancestor etc
Iterate through TSV in batches performing lookup for missing values, using any supportin…
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#1703 indicates a larger problem with namespace conflicts.
New projects should be encouraged (required?) to check for conflicts. Checking would be the easiest and most effective place to look curr…
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Before commenting, read the details on how many ontologies like GO, Mondo, Uberon, HPO, CL manage synonyms. We are lacking good central OMO docs on this, but for now you can read https://github.com/ob…
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Chris Hunter presented at Biocuration 2023 that GigaDB is annotating datasets using controlled vocabularies (mostly ontologies). It would be great to use the Bioregistry in this in a few places:
1.…