{"payload":{"pageCount":3,"repositories":[{"type":"Public","name":"auspice.us","owner":"nextstrain","isFork":false,"description":"","allTopics":[],"primaryLanguage":{"name":"JavaScript","color":"#f1e05a"},"pullRequestCount":2,"issueCount":6,"starsCount":13,"forksCount":8,"license":null,"participation":[2,0,0,0,2,0,0,0,0,6,0,2,0,0,3,9,0,3,0,0,0,0,1,0,0,2,0,0,0,0,0,0,3,0,0,0,0,0,0,0,2,4,2,0,2,0,0,0,0,0,0,2],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-26T04:16:05.076Z"}},{"type":"Public","name":"nextstrain.org","owner":"nextstrain","isFork":false,"description":"The Nextstrain website","allTopics":[],"primaryLanguage":{"name":"JavaScript","color":"#f1e05a"},"pullRequestCount":12,"issueCount":74,"starsCount":87,"forksCount":49,"license":"GNU Affero General Public License v3.0","participation":[2,0,0,2,15,9,10,14,20,21,3,7,7,6,6,4,2,3,3,25,13,0,8,17,6,3,2,0,3,4,13,22,21,14,18,20,15,29,13,15,28,39,21,18,11,39,4,9,28,13,20,16],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-26T04:15:28.848Z"}},{"type":"Public","name":"mpox","owner":"nextstrain","isFork":false,"description":"Nextstrain build for mpox virus","allTopics":["metadata","bioinformatics","pipeline","pathogen","phylogenetics","genbank","augur","nextstrain","auspice","virus-evolution","genomic-epidemiology","monkeypox","mpox"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":9,"issueCount":24,"starsCount":42,"forksCount":18,"license":"MIT License","participation":[4,1,6,49,18,4,4,6,1,17,3,14,8,2,9,1,0,0,0,4,16,1,8,1,20,0,1,0,0,0,0,0,1,6,3,15,14,1,0,1,2,2,5,0,2,0,5,5,3,2,5,1],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-26T03:55:30.302Z"}},{"type":"Public","name":"auspice","owner":"nextstrain","isFork":false,"description":"Web app for visualizing pathogen evolution","allTopics":[],"primaryLanguage":{"name":"JavaScript","color":"#f1e05a"},"pullRequestCount":45,"issueCount":227,"starsCount":291,"forksCount":161,"license":"GNU Affero General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-26T03:49:40.854Z"}},{"type":"Public","name":"ncov","owner":"nextstrain","isFork":false,"description":"Nextstrain build for novel coronavirus SARS-CoV-2","allTopics":["pathogen","nextstrain","ncov","sars-cov-2"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":25,"issueCount":72,"starsCount":1351,"forksCount":404,"license":"MIT License","participation":[1,0,0,8,3,1,0,0,0,0,0,0,0,3,5,2,0,0,0,3,6,2,12,3,2,0,0,5,1,0,0,1,3,0,1,4,0,0,0,0,3,2,0,2,6,1,4,1,0,17,10,4],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-25T19:04:51.041Z"}},{"type":"Public","name":"fauna","owner":"nextstrain","isFork":false,"description":"RethinkDB database to support real-time virus analysis","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":9,"issueCount":16,"starsCount":33,"forksCount":13,"license":"GNU Affero General Public License v3.0","participation":[1,0,1,1,1,1,0,3,7,2,2,1,7,3,1,4,1,0,1,1,2,1,2,2,1,0,1,1,1,1,3,1,1,2,8,0,1,2,3,1,3,3,5,11,3,5,1,18,2,1,1,4],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-24T00:02:23.475Z"}},{"type":"Public","name":"oropouche","owner":"nextstrain","isFork":false,"description":"Oropouche Nextstrain build ","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":2,"starsCount":0,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-23T23:38:52.482Z"}},{"type":"Public","name":"rabies","owner":"nextstrain","isFork":false,"description":"","allTopics":["pathogen","nextstrain"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":2,"starsCount":0,"forksCount":0,"license":null,"participation":[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,9,6,7,1,0,5,10],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-23T21:17:53.405Z"}},{"type":"Public","name":"yellow-fever","owner":"nextstrain","isFork":false,"description":"","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":1,"starsCount":0,"forksCount":4,"license":null,"participation":[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,6,7,0,0,1,2,0,1,8,1,2,1,0,5],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-23T18:57:56.496Z"}},{"type":"Public","name":"augur","owner":"nextstrain","isFork":false,"description":"Pipeline components for real-time phylodynamic analysis","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":58,"issueCount":227,"starsCount":268,"forksCount":127,"license":"GNU Affero General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-23T18:12:54.023Z"}},{"type":"Public","name":"nextclade","owner":"nextstrain","isFork":false,"description":"Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement","allTopics":["science","research","virus","sequencing","next-generation-sequencing","dna","rna","influenza","sequences","strain","nextstrain","ncov","coronavirus","covid-19","covid","covid19","sars-cov-2","neherlab","clades","clade"],"primaryLanguage":{"name":"Rust","color":"#dea584"},"pullRequestCount":17,"issueCount":101,"starsCount":210,"forksCount":58,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-23T02:14:01.231Z"}},{"type":"Public","name":"docker-base","owner":"nextstrain","isFork":false,"description":"Docker image build for nextstrain/base","allTopics":[],"primaryLanguage":{"name":"Shell","color":"#89e051"},"pullRequestCount":4,"issueCount":11,"starsCount":12,"forksCount":6,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-23T00:07:15.766Z"}},{"type":"Public","name":"seasonal-cov","owner":"nextstrain","isFork":false,"description":"Nextstrain build for seasonal coronaviruses","allTopics":["pathogen","nextstrain"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":2,"starsCount":1,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-22T23:36:17.080Z"}},{"type":"Public","name":"lassa","owner":"nextstrain","isFork":false,"description":"Nextstrain build for Lassa virus","allTopics":["pathogen","nextstrain"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":6,"starsCount":0,"forksCount":5,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-22T18:30:43.511Z"}},{"type":"Public","name":"docs.nextstrain.org","owner":"nextstrain","isFork":false,"description":"Umbrella documentation project for Nextstrain","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":5,"issueCount":22,"starsCount":17,"forksCount":13,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-22T17:55:05.577Z"}},{"type":"Public","name":"ncov-ingest","owner":"nextstrain","isFork":false,"description":"A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.","allTopics":["python","bash","pathogen","genbank","nextstrain","ncov","sars-cov-2","gisaid"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":8,"issueCount":30,"starsCount":35,"forksCount":20,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-22T17:49:25.732Z"}},{"type":"Public","name":"nextclade_data","owner":"nextstrain","isFork":false,"description":"Datasets for <a href=\"https://github.com/nextstrain/nextclade\">https://github.com/nextstrain/nextclade</a>","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":13,"issueCount":5,"starsCount":29,"forksCount":25,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-22T17:41:56.155Z"}},{"type":"Public","name":"avian-flu","owner":"nextstrain","isFork":false,"description":"Nextstrain build for avian influenza viruses","allTopics":["pathogen","nextstrain"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":9,"starsCount":15,"forksCount":6,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-22T02:04:48.528Z"}},{"type":"Public","name":".github","owner":"nextstrain","isFork":false,"description":"","allTopics":[],"primaryLanguage":{"name":"Shell","color":"#89e051"},"pullRequestCount":0,"issueCount":4,"starsCount":8,"forksCount":11,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-20T23:13:50.565Z"}},{"type":"Public","name":"cli","owner":"nextstrain","isFork":false,"description":"The Nextstrain command-line interface (CLI)—a program called nextstrain—which aims to provide a consistent way to run and visualize pathogen builds and access Nextstrain components like Augur and Auspice across computing environments such as Docker, Conda, and AWS Batch.","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":3,"issueCount":63,"starsCount":27,"forksCount":20,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-20T22:58:48.524Z"}},{"type":"Public","name":"rsv","owner":"nextstrain","isFork":false,"description":"Workflow for RSV analyses on Nextstrain.org","allTopics":["pathogen","nextstrain"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":4,"issueCount":5,"starsCount":6,"forksCount":2,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-20T22:02:18.244Z"}},{"type":"Public template","name":"pathogen-repo-guide","owner":"nextstrain","isFork":false,"description":"","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":16,"starsCount":3,"forksCount":1,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-20T17:33:37.357Z"}},{"type":"Public","name":"WNV","owner":"nextstrain","isFork":false,"description":"the repository used to build West Nile Virus for nextstrain","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-16T22:02:34.923Z"}},{"type":"Public","name":"seasonal-flu","owner":"nextstrain","isFork":false,"description":"Scripts. config, and snakefiles for seasonal-flu nextstrain builds","allTopics":["pathogen","nextstrain"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":2,"issueCount":26,"starsCount":44,"forksCount":26,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-15T17:28:41.503Z"}},{"type":"Public","name":"conda-base","owner":"nextstrain","isFork":false,"description":"Conda package build for nextstrain-base","allTopics":["conda","mamba","nextstrain"],"primaryLanguage":{"name":"Shell","color":"#89e051"},"pullRequestCount":2,"issueCount":7,"starsCount":1,"forksCount":1,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-06T01:12:28.953Z"}},{"type":"Public","name":"nipah","owner":"nextstrain","isFork":false,"description":"","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":1,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-08-05T20:04:25.393Z"}},{"type":"Public","name":"flu_frequencies","owner":"nextstrain","isFork":false,"description":"Flu clade and mutation frequencies","allTopics":["mutations","influenza","flu","clades"],"primaryLanguage":{"name":"TypeScript","color":"#3178c6"},"pullRequestCount":4,"issueCount":5,"starsCount":3,"forksCount":3,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-07-31T22:12:02.885Z"}},{"type":"Public","name":"bioconda-recipes","owner":"nextstrain","isFork":true,"description":"Fork for maintaining Nextstrain-related recipes and submitting PRs upstream.","allTopics":[],"primaryLanguage":{"name":"Shell","color":"#89e051"},"pullRequestCount":0,"issueCount":3,"starsCount":0,"forksCount":3181,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-07-24T18:05:23.173Z"}},{"type":"Public","name":"infra","owner":"nextstrain","isFork":false,"description":"Nextstrain shared infrastructure","allTopics":[],"primaryLanguage":{"name":"Makefile","color":"#427819"},"pullRequestCount":0,"issueCount":1,"starsCount":0,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-07-24T16:55:30.456Z"}},{"type":"Public","name":"enterovirus_d68","owner":"nextstrain","isFork":false,"description":"Enterovirus-D68 phylogenetic analyses code - actively maintained","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":1,"starsCount":1,"forksCount":4,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-07-24T10:23:57.794Z"}}],"repositoryCount":89,"userInfo":null,"searchable":true,"definitions":[],"typeFilters":[{"id":"all","text":"All"},{"id":"public","text":"Public"},{"id":"source","text":"Sources"},{"id":"fork","text":"Forks"},{"id":"archived","text":"Archived"},{"id":"template","text":"Templates"}],"compactMode":false},"title":"nextstrain repositories"}