WC-Onto
Ontology for whole-cell modeling
Installation
Installing the ontology for use in Python
Install this Python package with pip
pip install git+https://github.com/KarrLab/wc_onto.git#egg=wc_onto[all]
This command will install this Python package, including the ontology (in OBO format) and the Python code for using the ontology. Once installed, the ontology will be located at pkg_resources.resource_filename('wc_onto', 'onto.obo').
Obtain a BioPortal API key
Save your BioPortal API key to a configuration file (~/.wc/wc_onto.cfg)
[wc_onto] [[bioportal]] key = <BioPortal API key>Import the package. The other ontologies which wc_onto references will automatically be downloaded the first time that the package is imported.
from wc_onto import onto
Downloading the ontology
Alternatively, the ontology can be downloaded (in OBO format) from GitHub or BioPortal
Download latest revision from GitHub
Download latest snapshot from BioPortal
Documentation
Please see the API documentation.
License
The package is released under the MIT license.
Development team
This package was developed by the Karr Lab at the Icahn School of Medicine at Mount Sinai in New York, USA.
Questions and comments
Please contact the Karr Lab with any questions or comments.
Release files for wc-onto 0.0.2
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Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
|---|---|---|---|---|
| wc_onto-0.0.2.tar.gz | 13.6 kB | Without provenance | Details for wc_onto-0.0.2.tar.gz |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Actions Reset |
|---|---|---|---|---|
| wc_onto-0.0.2-py2.py3-none-any.whl | Python 2, Python 3 | none | any | Details for wc_onto-0.0.2-py2.py3-none-any.whl |
Total release size: 26.6 kB
Release files / wc_onto-0.0.2.tar.gz
| Download URL | wc_onto-0.0.2.tar.gz |
|---|---|
| Size | 13.6 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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Release files / wc_onto-0.0.2-py2.py3-none-any.whl
| Download URL | wc_onto-0.0.2-py2.py3-none-any.whl |
|---|---|
| Size | 13.1 kB |
| Tags | Python 2 Python 3 |
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SHA-256 checksum How to use checksums |
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