Welcome to Nextstrain’s documentation!

Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. We provide a continually-updated view of publicly available data with powerful analyses and visualizations showing pathogen evolution and epidemic spread. Our goal is to aid epidemiological understanding and improve outbreak response. If you have any questions, or simply want to say hi, please give us a shout at

This documentation is structured to meet the needs of the following user personas1, 2:

  • Nextstrain Reader (General)

  • Nextstrain Reader (Scienctific)

  • Public Health Professional

  • Bioinformatician

  • Researcher

  • Software developer

  • GISAID User

This documentation is comprised of four different types of documents3: