hpo-toolkit
A toolkit for working with Human Phenotype Ontology (HPO) and HPO disease annotations in Python.
Example
Loading HPO is as simple as:
import hpotk
store = hpotk.configure_ontology_store()
hpo = store.load_hpo()
Now you have the concepts and the hierarchy of the latest HPO release at your fingertips.
Next, load the HPO disease annotations by running:
from hpotk.annotations.load.hpoa import SimpleHpoaDiseaseLoader
hpoa_path = 'https://github.com/obophenotype/human-phenotype-ontology/releases/download/v2023-10-09/phenotype.hpoa'
loader = SimpleHpoaDiseaseLoader(hpo)
diseases = loader.load(hpoa_path)
assert len(diseases) == 12_468
You got yourself phenotype annotations of 12,468 rare diseases.
Learn more
Find more info in our detailed documentation:
- Stable documentation (last release on
mainbranch) - Latest documentation (bleeding edge, latest commit on
developmentbranch)
1 maintainer
Metadata
1 maintainer
Release files for hpo-toolkit 0.8.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| hpo_toolkit-0.8.1.tar.gz | 106.3 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| hpo_toolkit-0.8.1-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 217.7 kB
Release files / hpo_toolkit-0.8.1.tar.gz
| Download URL | hpo_toolkit-0.8.1.tar.gz |
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| Size | 106.3 kB |
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Release files / hpo_toolkit-0.8.1-py3-none-any.whl
| Download URL | hpo_toolkit-0.8.1-py3-none-any.whl |
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| Size | 111.4 kB |
| Tags | Python 3 |
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