README.md

Nextclade

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

by Nextstrain team

🌎 clades.nextstrain.org

nextclade.mp4
Brief demonstration of Nextclade Web. Large version is here.

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📜️ Citation

If you use results obtained with Nextclade in a publication, please

• cite our paper:

  Aksamentov, I., Roemer, C., Hodcroft, E. B., & Neher, R. A., (2021). Nextclade: clade assignment, mutation calling and quality control for viral genomes. Journal of Open Source Software, 6(67), 3773, https://doi.org/10.21105/joss.03773

  (bibtex)

• where possible, provide a link to Nextclade Web:

  https://clades.nextstrain.org

📗 Documentation

• Documentation for Nextclade: https://docs.nextstrain.org/projects/nextclade
• Documentation for the parent project, Nextstrain: https://docs.nextstrain.org

🧑‍💻 Development

Read developer guide here: docs/dev/developer-guide.md

✨ Team

Nextclade is a part of Nextstrain project .

It is maintained by:

Ivan Aksamentov Senior Software Engineer NeherLab, Biozentrum, University of Basel Swiss Institute of Bioinformatics

Richard Neher Principal Investigator NeherLab, Biozentrum, University of Basel Swiss Institute of Bioinformatics

Cornelius Roemer Staff Scientist NeherLab, Biozentrum, University of Basel Swiss Institute of Bioinformatics

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 🤔 ⚠️ 📢 👀	Anna Parker 💻 ⚠️ 🤔	Thomas Sibley 🚇 🛡️	Victor Lin 💻 📖	Theo Sanderson 💻	Natalie Stroud 🖋 🌍	Alex Rubinsteyn 📖	Christopher Bottoms 📖
Finlay Maguire 📖	dnanto 💻 🔣

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

🏢 Sponsors

We are thankful to the following companies who supported us:

Vercel for sponsoring Nextclade builds on their platform

⚖️ License

MIT License