Charles Tapley Hoyt
Charles Tapley Hoyt
This PR is a proof-of-concept that some of the functionalities of CURIE management introduced in #306 could be covered by the Bioregistry. A big caveat of this implementation is that...
Along a similar vein as #282, Manubot does not seem to provide any ChemRxiv support. This is a bit more clear cut as a feature addition that I would be...
Right now the `Ontology.dump()` function only supports OBO and OBO Graph JSON. It would be great if it could dump valid OWL (e.g. in RDF/XML) or another serialization of OWL...
I've been debugging the [CHIRO (CHEBI Integrated Role Ontology)](http://www.obofoundry.org/ontology/chiro.html) OBO export, and it had a few issues. First, I had to manually add some `Typedef` stanzas for its ad-hoc relations....
Currently, there's a limitation on the versions of Python on which `torchdrug` can be installed https://github.com/DeepGraphLearning/torchdrug/blob/278bcc8cba914d562bd84d749833f2d67a6c11c1/setup.py#L43 I'm not sure why this is here - most of its dependencies are version...
This pull request does the following: 1. Uses the `class-resolver` to reduce the if/else logic used to pick readouts 2. Enables using the "max" readout
This PR closes #1263 by updating some of the interpretations made in DrugBank's action field. It's most likely the case that all curated interactions in DrugBank imply binding between an...
I came across the ECOTOX Knowledgebase in https://arxiv.org/pdf/2112.04605.pdf. It seems to be centered around the ecological effects of chemicals (e.g., on certain organisms). This needs a bit more investigation to...
As an alternative to the OWL client and OBO client, which both load ontologies by their source files, the following code could be used to directly reuse any arbitrary ontology...