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@nextstrain

Nextstrain

Real-time tracking of pathogen evolution

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  1. ncov ncov Public

    Nextstrain build for SARS-CoV-2

    Python 1.4k 406

  2. augur augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 268 130

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 299 166

Repositories

Showing 10 of 94 repositories
  • nextclade Public

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

    nextstrain/nextclade’s past year of commit activity
    Rust 226 MIT 60 111 (31 issues need help) 23 Updated Mar 10, 2025
  • forecasts-viz Public
    nextstrain/forecasts-viz’s past year of commit activity
    JavaScript 1 0 2 1 Updated Mar 10, 2025
  • seasonal-flu Public

    Scripts. config, and snakefiles for seasonal-flu nextstrain builds

    nextstrain/seasonal-flu’s past year of commit activity
    Python 47 28 28 1 Updated Mar 8, 2025
  • dengue Public

    Nextstrain build for dengue virus

    nextstrain/dengue’s past year of commit activity
    Python 8 12 13 (1 issue needs help) 0 Updated Mar 7, 2025
  • WNV Public

    the repository used to build West Nile Virus for nextstrain

    nextstrain/WNV’s past year of commit activity
    Python 4 0 6 3 Updated Mar 7, 2025
  • avian-flu Public

    Nextstrain build for avian influenza viruses

    nextstrain/avian-flu’s past year of commit activity
    Python 25 10 15 4 Updated Mar 6, 2025
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org’s past year of commit activity
    JavaScript 95 AGPL-3.0 50 69 12 Updated Mar 6, 2025
  • fauna Public

    RethinkDB database to support real-time virus analysis

    nextstrain/fauna’s past year of commit activity
    Python 33 AGPL-3.0 13 19 10 Updated Mar 6, 2025
  • cli Public

    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.

    nextstrain/cli’s past year of commit activity
    Python 27 MIT 20 62 6 Updated Mar 6, 2025
  • lassa Public

    Nextstrain build for Lassa virus

    nextstrain/lassa’s past year of commit activity
    Python 0 5 8 0 Updated Mar 6, 2025
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