{"id":16265062,"url":"https://github.com/robaina/galapagos_cgem","last_synced_at":"2025-04-08T14:29:32.532Z","repository":{"id":250136954,"uuid":"832653041","full_name":"Robaina/galapagos_cgem","owner":"Robaina","description":null,"archived":false,"fork":false,"pushed_at":"2024-07-25T10:37:39.000Z","size":17792,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-04-06T10:37:59.968Z","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":null,"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":null,"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":"2024-07-23T13:01:54.000Z","updated_at":"2024-07-25T10:37:41.000Z","dependencies_parsed_at":"2024-07-25T12:14:43.589Z","dependency_job_id":null,"html_url":"https://github.com/Robaina/galapagos_cgem","commit_stats":null,"previous_names":["robaina/galapagos_cgem"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Fgalapagos_cgem","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Fgalapagos_cgem/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Fgalapagos_cgem/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Robaina%2Fgalapagos_cgem/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Robaina","download_url":"https://codeload.github.com/Robaina/galapagos_cgem/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":247860129,"owners_count":21008232,"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":"2024-10-10T17:05:56.869Z","updated_at":"2025-04-08T14:29:32.505Z","avatar_url":"https://github.com/Robaina.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Reconstructing a cGEM for the most abundant marine microbial species in Galápagos\n\n\n__Plan__:\n\n1. Select GEMs for the most abundant marine microbial species in the dataset, represented by their families in [S3 Table](cgem_galapagos/data/Table_3.XLSX)\n2. Build cGEM and analyze with MICOM\n3. Input abundances to the cGEM as well as key environmental parameters: DOC, DIC, NO3, PO4, maybe chlorophyll as well\n4. Analyze community changes (interactions) and growth rates for the four main scenarios: 2015, 2016, east and west, summarized in this [table](cgem_galapagos/outputs/Galapagos_Archipelago_Key_Changes.tsv).\n\n__Data__:\n\n1. Chlorophyll for small fraction (\u003c 5 µm) and large fraction (\u003e 5 µm), for bacterioplankton and phytoplankton, respectively.\n\n__References__:\n\n1. https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2020.575194/full","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Frobaina%2Fgalapagos_cgem","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Frobaina%2Fgalapagos_cgem","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Frobaina%2Fgalapagos_cgem/lists"}