{"id":23223081,"url":"https://github.com/nextstrain/wnv","last_synced_at":"2025-08-19T11:32:54.163Z","repository":{"id":174050266,"uuid":"624127584","full_name":"nextstrain/WNV","owner":"nextstrain","description":"the repository used to build West Nile Virus for nextstrain","archived":false,"fork":false,"pushed_at":"2024-12-18T20:37:56.000Z","size":12688,"stargazers_count":2,"open_issues_count":8,"forks_count":0,"subscribers_count":8,"default_branch":"main","last_synced_at":"2024-12-18T21:32:12.342Z","etag":null,"topics":["nextstrain","pathogen"],"latest_commit_sha":null,"homepage":"https://nextstrain.org/WNV/NA","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":"grubaughlab/WNV-nextstrain","license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/nextstrain.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":"2023-04-05T19:59:34.000Z","updated_at":"2024-11-22T17:43:19.000Z","dependencies_parsed_at":"2024-10-25T02:59:23.030Z","dependency_job_id":"b31f4aaa-717c-4f0c-b84d-437ffd20cbca","html_url":"https://github.com/nextstrain/WNV","commit_stats":null,"previous_names":["nw-page/wnv-nextstrain"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nextstrain%2FWNV","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nextstrain%2FWNV/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nextstrain%2FWNV/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nextstrain%2FWNV/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/nextstrain","download_url":"https://codeload.github.com/nextstrain/WNV/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":230351132,"owners_count":18212790,"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":["nextstrain","pathogen"],"created_at":"2024-12-18T23:15:59.374Z","updated_at":"2025-08-19T11:32:54.153Z","avatar_url":"https://github.com/nextstrain.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Nextstrain repository for West Nile virus\n\nThis repository contains three workflows for the analysis of West Nile virus data:\n\n- [`ingest/`](./ingest) - Download data from GenBank, clean and curate it\n- [`phylogenetic/`](./phylogenetic) - Filter sequences, align, construct phylogeny and export for visualization\n- [`nextclade/`](./nextclade) - Create nextclade datasets\n\nEach folder contains a README.md with more information. The results of running both workflows are publicly visible at [nextstrain.org/WNV](https://nextstrain.org/WNV).\n\n## Installation\n\nFollow the [standard installation instructions](https://docs.nextstrain.org/en/latest/install.html) for Nextstrain's suite of software tools.\n\n## Quickstart\n\nRun the default phylogenetic workflow via:\n```\ncd phylogenetic/\nnextstrain build .\nnextstrain view .\n```\n\n## Documentation\n\n- [Running a pathogen workflow](https://docs.nextstrain.org/en/latest/tutorials/running-a-workflow.html)\n\n## Working on this repo\n\nThis repo is configured to use [pre-commit](https://pre-commit.com),\nto help automatically catch common coding errors and syntax issues\nwith changes before they are committed to the repo.\n.\nIf you will be writing new code or otherwise working within this repo,\nplease do the following to get started:\n\n1. install `pre-commit` by running either `python -m pip install\n   pre-commit` or `brew install pre-commit`, depending on your\n   preferred package management solution\n2. install the local git hooks by running `pre-commit install` from\n   the root of the repo\n3. when problems are detected, correct them in your local working tree\n   before committing them.\n\nNote that these pre-commit checks are also run in a GitHub Action when\nchanges are pushed to GitHub, so correcting issues locally will\nprevent extra cycles of correction.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fnextstrain%2Fwnv","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fnextstrain%2Fwnv","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fnextstrain%2Fwnv/lists"}