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- [ ] Have separate goals for obtaining the sources, which may eventually be extended to contain preprocessing (e.g. `mirror/do.owl:`)
- [ ] Using sssom-py extract all mappings from DO, ORDO, OMIM an…
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hi,
I have a question about how to create a new ontology index. I want to use ontologyIndex to create ontology index for ncit.obo file.
Here is my code:
>library(ontologyIndex)
> get_ontology("D:…
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On Slack, @colleenXu pointed out that it might make more sense for "Neoplastic process" ([T191](https://uts.nlm.nih.gov/uts/umls/semantic-network/T191) or tree number B2.2.1.2.1.2) to be classified as…
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Per requests from DO, some new disease related exposures are required across multiple patterns:
Exposure Stressor | Recommended xref term | Full URI | Other xref opt…
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2 HCA components use OLS:
- ingest-ui
- ingest-validator
options:
1. use public ols
2. ~upgrade private hosted OLS to use OLS 4~
Option 1 is preferable in terms of maintenance.
Amnon and Enrique nee…
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@gaurav create an output available mappings from UMLS to GO
Background:
I started working on mapping NCIT processes to GO terms in this [spreadsheet](https://docs.google.com/spreadsheets/d/1SgsuD2…
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GO:
```yaml
id: GO:0016805
name: dipeptidase activity
def: "Catalysis of the hydrolysis of a dipeptide." [https://www.ebi.ac.uk/merops/about/glossary.shtml#DIPEPTIDASE, PMID:19879002]
synonym: …
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Hi!
I'm running variant calling on a batch of 80 bovine WGS samples and the workflow is failing at the SV stage with Manta. I've previously tested it on 2 samples and that worked fine.
This is t…
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from https://github.com/monarch-initiative/mondo-ingest/blob/main/src/ontology/lexmatch/unmapped_ncit_lex.tsv
subject_id | subject_label | predicate_id | object_id | object_label | mapping_justific…
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I was looking at the overall taxonomy of ECTO and the reuse of ExO and NCIT classes seems unnecessary and may even detract from the quality of the ontology more than they add to it.
The two main i…