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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 406

  2. augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 268 130

  3. auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 300 166

Repositories

Showing 10 of 94 repositories
  • auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 300 AGPL-3.0 166 232 (4 issues need help) 32 Updated Mar 26, 2025
  • measles Public

    Nextstrain build for measles virus

    Python 1 7 5 5 Updated Mar 26, 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.

    Python 27 MIT 20 65 5 Updated Mar 26, 2025
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

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

    Shell 0 3,438 3 0 Updated Mar 26, 2025
  • mpox Public

    Nextstrain build for mpox virus

    Python 46 MIT 20 27 5 Updated Mar 26, 2025
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 268 AGPL-3.0 130 223 (1 issue needs help) 38 Updated Mar 26, 2025
  • dengue Public

    Nextstrain build for dengue virus

    Python 8 12 13 (1 issue needs help) 1 Updated Mar 26, 2025
  • WNV Public

    the repository used to build West Nile Virus for nextstrain

    Python 4 1 5 0 Updated Mar 26, 2025
  • nextclade_data Public

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

    Python 33 27 9 15 Updated Mar 26, 2025
  • nextclade Public

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

    Rust 227 MIT 60 112 (32 issues need help) 20 Updated Mar 26, 2025
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