{"id":16265058,"url":"https://github.com/robaina/oil_spill_example","last_synced_at":"2025-04-08T14:29:16.737Z","repository":{"id":206057914,"uuid":"711871583","full_name":"Robaina/oil_spill_example","owner":"Robaina","description":null,"archived":false,"fork":false,"pushed_at":"2024-10-18T14:44:37.000Z","size":29109,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-04-06T10:38:02.948Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Jupyter Notebook","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/Robaina.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2023-10-30T10:46:14.000Z","updated_at":"2024-10-18T14:44:41.000Z","dependencies_parsed_at":"2024-07-17T14:09:21.316Z","dependency_job_id":"aa8c90a6-aece-42ab-9ac8-54866a2c3433","html_url":"https://github.com/Robaina/oil_spill_example","commit_stats":{"total_commits":28,"total_committers":1,"mean_commits":28.0,"dds":0.0,"last_synced_commit":"2ca979c1a18cf03b46e30fe985dcdec0c225fa79"},"previous_names":["robaina/perspective","robaina/oil_spill_example"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Foil_spill_example","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Foil_spill_example/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Foil_spill_example/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Foil_spill_example/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Robaina","download_url":"https://codeload.github.com/Robaina/oil_spill_example/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":247860092,"owners_count":21008226,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2024-10-10T17:05:55.444Z","updated_at":"2025-04-08T14:29:16.715Z","avatar_url":"https://github.com/Robaina.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Bioremediation of a Coastal Oil Spill: A Case Study Using a Community Genome-Scale Metabolic Model\n\n\u003cimg src=\"imgs/banner.png\" alt=\"Banner image depicting bioremediation\" style=\"width:100%; max-height:200px;\"\u003e\n\nThis 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. \n\n\n## Running the notebook locally\n\n1) Clone this repository to your local machine, set up a virtual environment, and install the dependencies:\n\n```bash\ngit clone\ncd\npython3 -m venv venv\nsource venv/bin/activate\npip install -r requirements.txt\n```\n\n2) Start a Jupyter Notebook server:\n\n```bash\njupyter notebook\n```\n\n3) Open the notebook `oil_spill.ipynb` and run the cells.\n\n## License\n\nThis work is license under the Apache License, Version 2.0. See the [LICENSE](LICENSE) file for details.","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Frobaina%2Foil_spill_example","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Frobaina%2Foil_spill_example","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Frobaina%2Foil_spill_example/lists"}