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In order to facilitate investigations of gene function within a gene expression dataset, we want to be able to implement a Gene Ontology menu that is capable of highlighting and/or filtering the preex…
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Shuffling is potentially very important. Large datasets are now supported only through lazy=True.
NM needs to support corpus shuffling after every epoch. One simple workaround is to add e.g. main.c…
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I am struggling with the properties and individual queries. If I use the example to query a term, that works fine
```
GET /api/ontologies/{ontology}/terms/{iri}
```
and
```
curl 'http://www.ebi.ac…
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We have a new release of NCRO, as usuall at http://purl.obolibrary.org/obo/ncro.owl
However, it is a merged version and I'd rather ontobee use http://purl.obolibrary.org/obo/ncro/prebuild/ncro.owl
Ho…
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As part of the NFDI4Chem effort to sugest metadata standards for [supplemantary tables](https://knowledgebase.nfdi4chem.de/knowledge_base/docs/topics/machine-readable_chemical_structures/#provide-mach…
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I have a corpus of ~75,000 abstracts that I want to make a KG out of using OntoGPT. After 4 hours, it only got through 50 documents -- not super promising!
I took a look through the docs to see if …
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See full doc: https://docs.google.com/document/d/1nUVnQ90MHMofOFrko5j_uUo72EEWfEOwRxILf-G5SNs/edit
Assuming KG is largely in ABox
* Direct
* Symmetry (e.g. A interacts with B)
* Inver…
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Many people like to browse ontologies as TSVs in excel etc, or to do programmatic operations over tabular serializations (RDBMSs, Pandas, R data frames, perl hacks, unix grep/sort etc).
It's fairly…
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While most of the standard, ODK-generated workflows use ROBOT, there are still rules where OWLTOOLS is used:
```Makefile
$(SUBSETDIR)/%.owl: $(ONT).owl | $(SUBSETDIR)
$(OWLTOOLS) $< --ext…
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During scheduled NEAT run:
```
16:30:56 Traceback (most recent call last):
16:30:56 File "/home/jenkinsuser/anaconda3/bin/neat", line 8, in
16:30:56 sys.exit(cli())
16:30:56 File "/h…