https://github.com/robaina/oil_spill_example
https://github.com/robaina/oil_spill_example
Last synced: about 1 year ago
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- Host: GitHub
- URL: https://github.com/robaina/oil_spill_example
- Owner: Robaina
- License: mit
- Created: 2023-10-30T10:46:14.000Z (over 2 years ago)
- Default Branch: master
- Last Pushed: 2024-10-18T14:44:37.000Z (over 1 year ago)
- Last Synced: 2025-04-06T10:38:02.948Z (about 1 year ago)
- Language: Jupyter Notebook
- Size: 27.8 MB
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# Bioremediation of a Coastal Oil Spill: A Case Study Using a Community Genome-Scale Metabolic Model
This repo contains the supplementary Jupyter Notebook of the [perspective article](): Applications of marine microbial community models in the nature-based economy. In this notebook, we demonstrate the use of a community genome-scale metabolic model (cGEM) to simulate the bioremediation of a coastal oil spill.
## Running the notebook locally
1) Clone this repository to your local machine, set up a virtual environment, and install the dependencies:
```bash
git clone
cd
python3 -m venv venv
source venv/bin/activate
pip install -r requirements.txt
```
2) Start a Jupyter Notebook server:
```bash
jupyter notebook
```
3) Open the notebook `oil_spill.ipynb` and run the cells.
## License
This work is license under the Apache License, Version 2.0. See the [LICENSE](LICENSE) file for details.