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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 408

  2. augur augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 279 135

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 312 171

Repositories

Showing 10 of 104 repositories
  • real-time-pathogens-ms Public

    Nextstrain automates real-time phylogenetic analysis of open data for endemic and emerging pathogens

    nextstrain/real-time-pathogens-ms's past year of commit activity
    TeX 0 0 0 0 Updated Sep 10, 2026
  • status Public

    Nextstrain status pages

    nextstrain/status's past year of commit activity
    JavaScript 1 MIT 1 5 1 Updated Sep 10, 2026
  • seasonal-flu Public

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

    nextstrain/seasonal-flu's past year of commit activity
    Python 64 34 27 9 Updated Sep 9, 2026
  • ebola Public

    Nextstrain build for Ebola virus

    nextstrain/ebola's past year of commit activity
    Python 6 10 9 0 Updated Sep 9, 2026
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

    Fork for maintaining Nextstrain-related recipes and submitting PRs upstream.

    nextstrain/bioconda-recipes's past year of commit activity
    Shell 0 4,112 3 0 Updated Sep 9, 2026
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    nextstrain/augur's past year of commit activity
    Python 279 AGPL-3.0 135 230 (1 issue needs help) 37 Updated Sep 9, 2026
  • variant-nowcast-hub Public Forked from reichlab/variant-nowcast-hub

    A repository to store COVID-19 variant nowcasts collected as a modeling hub.

    nextstrain/variant-nowcast-hub's past year of commit activity
    R 0 MIT 18 0 0 Updated Sep 9, 2026
  • forecasts-flu Public

    Seasonal influenza variant growth rates and frequency forecasts

    nextstrain/forecasts-flu's past year of commit activity
    Python 1 MIT 0 11 4 Updated Sep 8, 2026
  • shared Public

    Shared internal tooling for pathogen workflows. Used by our individual pathogen repos which produce Nextstrain builds.

    nextstrain/shared's past year of commit activity
    Python 1 1 4 5 Updated Sep 8, 2026
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org's past year of commit activity
    JavaScript 96 AGPL-3.0 56 70 12 Updated Sep 8, 2026
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