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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 409

  2. augur augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 276 136

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 308 169

Repositories

Showing 10 of 100 repositories
  • rsv Public

    Workflow for RSV analyses on Nextstrain.org

    nextstrain/rsv’s past year of commit activity
    Python 11 6 9 5 Updated Apr 8, 2026
  • measles Public

    Nextstrain build for measles virus

    nextstrain/measles’s past year of commit activity
    Python 3 9 5 6 Updated Apr 8, 2026
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    nextstrain/augur’s past year of commit activity
    Python 276 AGPL-3.0 136 232 (1 issue needs help) 39 Updated Apr 7, 2026
  • docs.nextstrain.org Public

    Umbrella documentation project for Nextstrain

    nextstrain/docs.nextstrain.org’s past year of commit activity
    Python 18 13 24 5 Updated Apr 7, 2026
  • 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 28 MIT 20 69 4 Updated Apr 7, 2026
  • forecasts-ncov Public

    SARS-CoV-2 variant growth rates and frequency forecasts

    nextstrain/forecasts-ncov’s past year of commit activity
    Python 9 3 12 3 Updated Apr 6, 2026
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org’s past year of commit activity
    JavaScript 96 AGPL-3.0 54 70 11 Updated Apr 6, 2026
  • auspice Public

    Web app for visualizing pathogen evolution

    nextstrain/auspice’s past year of commit activity
    JavaScript 308 AGPL-3.0 169 252 (4 issues need help) 38 Updated Apr 1, 2026
  • seasonal-flu Public

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

    nextstrain/seasonal-flu’s past year of commit activity
    Python 59 30 27 6 Updated Apr 1, 2026
  • avian-flu Public

    Nextstrain build for avian influenza viruses

    nextstrain/avian-flu’s past year of commit activity
    Python 27 10 18 6 Updated Apr 1, 2026
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