{"id":41713158,"url":"https://github.com/kentwait/contagion","last_synced_at":"2026-01-24T21:49:47.059Z","repository":{"id":57612479,"uuid":"135280946","full_name":"kentwait/contagion","owner":"kentwait","description":"Contagion: Simulating Viral Evolution in Epidemics using Networks","archived":false,"fork":false,"pushed_at":"2018-07-17T04:53:45.000Z","size":337,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-10-01T05:42:55.260Z","etag":null,"topics":["evolution","simulation","virus"],"latest_commit_sha":null,"homepage":"","language":"Go","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"apache-2.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/kentwait.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}},"created_at":"2018-05-29T10:39:24.000Z","updated_at":"2022-04-14T21:23:13.000Z","dependencies_parsed_at":"2022-09-17T16:01:38.187Z","dependency_job_id":null,"html_url":"https://github.com/kentwait/contagion","commit_stats":null,"previous_names":["kentwait/contagiongo"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/kentwait/contagion","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kentwait%2Fcontagion","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kentwait%2Fcontagion/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kentwait%2Fcontagion/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kentwait%2Fcontagion/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/kentwait","download_url":"https://codeload.github.com/kentwait/contagion/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kentwait%2Fcontagion/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28737622,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-24T21:19:41.845Z","status":"ssl_error","status_checked_at":"2026-01-24T21:13:38.675Z","response_time":89,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.6:443 state=error: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"can_crawl_api":true,"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":["evolution","simulation","virus"],"created_at":"2026-01-24T21:49:46.467Z","updated_at":"2026-01-24T21:49:47.054Z","avatar_url":"https://github.com/kentwait.png","language":"Go","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Contagion\n## An Individual-based Model for Simulating Viral Evolution in Epidemics using Networks\nContagion is a new type of forward genetic simulator and disease outbreak simulator specially designed to explicitly model evolution both within- and between-host scales of reference simultaneously. At the within-host level, Contagion simulates the processes of replication, mutation, selection, and drift on viral pathogen sequences. At the host population level, Contagion performs like an epidemic simulator that tracks the infection status of individual hosts and simulates pathogen transmission between hosts conditioned on the available routes present in a given host population.\n\n## Important Notice\nContagion is currently under development and APIs may change.\n\n### Contact\nIf encounter problems or have questions or feature requests, please feel contact me - \n\nKent Kawashima  \nEmail: kentkawashima@nig.ac.jp  \nTwitter: [@kent](https://twitter.com/Kent)\n\n## License\nApache License, Version 2.0\nCopyright 2018 Kent Kawashima\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkentwait%2Fcontagion","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fkentwait%2Fcontagion","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkentwait%2Fcontagion/lists"}