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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 279 137

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 312 172

Repositories

Showing 10 of 105 repositories
  • nextclade Public

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

    nextstrain/nextclade's past year of commit activity
    Rust 263 MIT 68 119 (34 issues need help) 32 Updated Sep 30, 2026
  • ebola Public

    Nextstrain build for Ebola virus

    nextstrain/ebola's past year of commit activity
    Python 6 10 9 1 Updated Sep 30, 2026
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org's past year of commit activity
    JavaScript 96 AGPL-3.0 56 70 14 Updated Sep 29, 2026
  • seasonal-flu Public

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

    nextstrain/seasonal-flu's past year of commit activity
    Python 65 34 28 10 Updated Sep 29, 2026
  • nextclade_data Public

    Datasets for https://github.com/nextstrain/nextclade

    nextstrain/nextclade_data's past year of commit activity
    Python 47 44 11 19 Updated Sep 29, 2026
  • auspice Public

    Web app for visualizing pathogen evolution

    nextstrain/auspice's past year of commit activity
    JavaScript 312 AGPL-3.0 172 250 (4 issues need help) 45 Updated Sep 28, 2026
  • avian-flu Public

    Nextstrain build for avian influenza viruses

    nextstrain/avian-flu's past year of commit activity
    Python 29 11 18 5 Updated Sep 28, 2026
  • hcv Public

    Hepatitis C workflows

    nextstrain/hcv's past year of commit activity
    Python 0 0 0 0 Updated Sep 27, 2026
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    nextstrain/augur's past year of commit activity
    Python 279 AGPL-3.0 137 230 (1 issue needs help) 41 Updated Sep 26, 2026
  • measles Public

    Nextstrain build for measles virus

    nextstrain/measles's past year of commit activity
    Python 4 9 7 3 Updated Sep 25, 2026
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