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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 406

  2. augur augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 268 130

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 299 165

Repositories

Showing 10 of 94 repositories
  • ncov Public

    Nextstrain build for SARS-CoV-2

    nextstrain/ncov’s past year of commit activity
    Python 1,352 MIT 406 73 22 Updated Feb 26, 2025
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org’s past year of commit activity
    JavaScript 94 AGPL-3.0 50 69 11 Updated Feb 26, 2025
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    nextstrain/augur’s past year of commit activity
    Python 268 AGPL-3.0 130 220 (1 issue needs help) 35 Updated Feb 26, 2025
  • dengue Public

    Nextstrain build for dengue virus

    nextstrain/dengue’s past year of commit activity
    Python 8 12 13 (1 issue needs help) 1 Updated Feb 26, 2025
  • forecasts-ncov Public

    SARS-CoV-2 variant growth rates and frequency forecasts

    nextstrain/forecasts-ncov’s past year of commit activity
    Python 7 2 11 5 Updated Feb 26, 2025
  • avian-flu Public

    Nextstrain build for avian influenza viruses

    nextstrain/avian-flu’s past year of commit activity
    Python 24 10 15 7 Updated Feb 26, 2025
  • seasonal-flu Public

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

    nextstrain/seasonal-flu’s past year of commit activity
    Python 46 27 28 0 Updated Feb 26, 2025
  • ncov-ingest Public

    A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.

    nextstrain/ncov-ingest’s past year of commit activity
    Python 36 MIT 20 30 8 Updated Feb 25, 2025
  • auspice Public

    Web app for visualizing pathogen evolution

    nextstrain/auspice’s past year of commit activity
    JavaScript 299 AGPL-3.0 165 232 (4 issues need help) 32 Updated Feb 25, 2025
  • nextclade Public

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

    nextstrain/nextclade’s past year of commit activity
    Rust 224 MIT 60 110 (31 issues need help) 21 Updated Feb 25, 2025
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