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Viral genome alignment, clade assignment, mutation calling, and quality checks

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Nextclade

Viral genome clade assignment, mutation calling, and sequence quality checks

by Nextstrain team

🌎 clades.nextstrain.org

Animated screenshot of the application, showcasing the user interface on main page

License package.json version

CircleCI master branch CircleCI staging branch CircleCI release branch CircleCI release-cli branch Security Headers Mozilla Observatory

GitHub last commit GitHub commit activity GitHub contributors DeepScan grade

Nextclade European Galaxy server

GitHub releases Nextclade Docker image version Nextclade Docker image version


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πŸ“¦ Packages

This repository consists of a set of packages presented in the table below. Refer to README files of individual packages for more details.

Package Type Get Docker images
nextalign C++ library
nextalign_cli C++ executable πŸ“₯ Github Releases πŸ‹ nextstrain/nextalign
nextclade C++ library
nextclade_cli C++ executable πŸ“₯ Github Releases πŸ‹ nextstrain/nextclade
nextclade_wasm WebAssembly module
nextclade_web Web App 🌎 clades.nextstrain.org

πŸ“— Documentation

TODO: add user documentation links

πŸ§‘β€πŸ’» Development

If you are a developer, curious about how Nextclade and Nextalign work, want to modify it or contribute new features or fixes, check out out developer's guides:

✨ Team

Nextclade is a part of Nextstrain logo Nextstrain project .

It is maintained by:

Ivan Aksamentov

Senior Software Engineer
NeherLab, Biozentrum, University of Basel

Richard Neher

Principal Investigator
NeherLab, Biozentrum, University of Basel

We are thankful to all our contributors, no matter how they contribute: in ideas, science, code, documentation or otherwise. Thanks goes to these people (emoji key):


Emma Hodcroft

πŸ€” ⚠️ πŸ“’ πŸ‘€

Thomas Sibley

πŸš‡ πŸ›‘οΈ

Theo Sanderson

πŸ’»

Natalie Stroud

πŸ–‹ 🌍

Alex Rubinsteyn

πŸ“–

Christopher Bottoms

πŸ“–

Finlay Maguire

πŸ“–

This project follows the all-contributors specification. Contributions of any kind welcome!

🏒 Sponsors

We are thankful to the following companies who supported us:

Vercel logo Vercel for sponsoring Nextclade builds on their platform

βš–οΈ License

MIT License

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Viral genome alignment, clade assignment, mutation calling, and quality checks

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