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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 269 131

  3. auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 300 166

Repositories

Showing 10 of 94 repositories
  • nextclade Public

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

    Rust 229 MIT 61 112 (31 issues need help) 20 Updated Apr 25, 2025
  • seasonal-flu Public

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

    Python 49 28 27 5 Updated Apr 24, 2025
  • nextstrain.org Public

    The Nextstrain website

    JavaScript 96 AGPL-3.0 50 72 13 Updated Apr 24, 2025
  • mumps Public

    Nextstrain build for mumps virus

    Python 2 5 4 2 Updated Apr 24, 2025
  • fauna Public

    RethinkDB database to support real-time virus analysis

    Python 34 AGPL-3.0 13 19 10 Updated Apr 24, 2025
  • nextclade_data Public

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

    Python 33 28 9 16 Updated Apr 24, 2025
  • mpox Public

    Nextstrain build for mpox virus

    Python 46 MIT 20 28 4 Updated Apr 24, 2025
  • rubella Public

    Nextstrain build for rubella virus

    Python 0 1 12 3 Updated Apr 24, 2025
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

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

    Shell 0 3,481 3 0 Updated Apr 23, 2025
  • nextstrain-walkthrough Public

    Workshop for VEME 2022: Real-time tracking of pathogen evolution using Nextstrain

    4 MIT 1 0 0 Updated Apr 23, 2025
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