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@nextstrain

Nextstrain

Real-time tracking of pathogen evolution

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  1. ncov Public

    Nextstrain build for SARS-CoV-2

    Python 1.4k 405

  2. augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 271 132

  3. auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 301 168

Repositories

Showing 10 of 95 repositories
  • mpox Public

    Nextstrain build for mpox virus

    Python 47 MIT 22 20 7 Updated Jun 21, 2025
  • seasonal-flu Public

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

    Python 51 28 27 2 Updated Jun 20, 2025
  • norovirus Public
    Python 0 MIT 0 5 2 Updated Jun 18, 2025
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 271 AGPL-3.0 132 219 (1 issue needs help) 34 Updated Jun 18, 2025
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

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

    Shell 0 3,538 3 0 Updated Jun 18, 2025
  • nextclade Public

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

    Rust 234 MIT 63 112 (33 issues need help) 17 Updated Jun 18, 2025
  • auspice.us Public
    JavaScript 13 8 4 2 Updated Jun 17, 2025
  • measles Public

    Nextstrain build for measles virus

    Python 3 7 3 4 Updated Jun 17, 2025
  • rubella Public

    Nextstrain build for rubella virus

    Python 2 1 7 2 Updated Jun 17, 2025
  • infra Public

    Nextstrain shared infrastructure

    Makefile 0 0 3 2 Updated Jun 17, 2025
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