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https://github.com/pombase/fypo/issues/4275
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There is likely an error in `MED.py` causing certain medication codes to be skipped. See issue #4. Data can be found at `$OAK/users/magu/repos/rivas-lab/in_old_not_tools.txt`
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When I run this code in my own notebook,
http://nbviewer.jupyter.org/github/biolink/ontobio/blob/master/notebooks/Mouse_Gene_Phenotypes.ipynb
```
z, xlabels, ylabels = aset.similarity_matrix(dis…
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A male patient with the following phrase - “mother was treated for trichomonas vaginitis during pregnancy” returns HP:0030683 for "Vaginitis". Can we adapt txt2hpo to identify/remove phenotypes from …
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Dear,
Thank you for the perfect software. It reported to me that failed reading phenotypes file when I used this software.
Traceback (most recent call last):
File "./permutation_testing.py", …
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Say you hypothetically had three phenotypes - cough, headache, and congestion. These phenotypes will all highly correlate with each other among individuals. Wouldn't this correlation inflate the Baye…
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FLybase and SGD have more complex multi-term phenotypes that require special consideration in the modeling.
We need to plan and implement ingests for these.
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In a recent meeting with Tony Hickey, external SME, he provided feedback on the Translator UI related to what he refers to as "convergent phenotyping", which is essentially the idea of leveraging shar…
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We have species-neutral traits in OBA (all kingdoms) and TO (plant traits). OBA can be mapped to EFO, ATO, VT
What should the relationship be between OBA and upheno?
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## We have multiple _potential_ use cases for recording causal relationships between phenotypes:
* Defining phenotypes that specify aetiology - e.g. hemolytic anemia MP:0001585 DEF: deficiency of …