-
We decided on the name PhenIO.owl to replace monarch.owl
I suggest create a new repo from scratch using ODK
use the following components
- mondo
- upheno
- all phenotype ontologies
- ubero…
-
This is an umbrella ticket for discussion of cell death phenotypes. It is motivated by the Drosophila Phenotype Ontology definition:
[cell death defective](https://www.ebi.ac.uk/ols/ontologies/dpo…
-
We need a general discussion on modelling pathological entities across OBO and in particular phenotype ontologies.
-
I would like to publicly recommend that all phenotype ontologies have their own
***X:Phenotype*** class, and require that all definitions are extended to
```
X:Phenotype and has_part some {...…
-
Need to make decision on phenotype mapping. Options include
- NCI Thesaurus https://www.ebi.ac.uk/ols/ontologies/ncit
- Mondo: https://www.ebi.ac.uk/ols/ontologies/mondo
For NCIT:
- Cell l…
-
There turns out to be quite a number of what I want to call "complex phenotypes". A complex phenotype is a phenotype whose definition involves more than one entity. So far the Phenotype Editor have id…
-
There was a changed in this PR:
https://github.com/solgenomics/sgn/commit/b3399347190f7c66142a96cea8ea08068e3d9d74
So that repeat observations are now ignored. Not sure if this was an intentiona…
-
This has been demonstrated for phenotypes (see [Köhler et al](https://www.biorxiv.org/content/10.1101/108977v1)).
Work under this issue may involve extending the approach to similar axiomatized ont…
-
Species-specific phenotype ontologies like ZP, PLANP and XPO all come with links referring to their very own anatomy ontologies. This means that strictly speaking, as you analyse them with upheno patt…
-
The ODK [65] is already used by some phenotype ontologies to drive template-driven development, QC, and ontology releases. We will extend the ODK to make QC reports more powerful and easier to underst…