Comments (2)
Hi Luca,
Thank you for checking out the repo. It looks like you have successfully run phenopy on your input files, that's great! The behavior you describe is expected. It's a property of the HRSS semantic similarity scoring algorithm. It's a way to scale similarity scores by rewarding nodes being compared further down the ontology. The way the algorithm is implemented here, even a phenotype-to-itself is only ever 1.0
by HRSS when the beta_ic
is 0.0
. This is the case in leaf nodes. Does this explanation help?
from phenopy.
Related Issues (11)
- update code that uses networkx
- remove rounding HOT 1
- Does nx.ancestors return children or ancestors? HOT 3
- incorrect downloads path HOT 2
- update parser for phenotype.hpoa
- Errors (and solutions) with anaconda on Windows 10 HOT 1
- Add w2v binary HOT 1
- install error HOT 1
- Incorrect url specified for HPO files
- add simreg as a similarity metric
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from phenopy.