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@nextstrain

Nextstrain

Real-time tracking of pathogen evolution

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  1. ncov ncov Public

    Nextstrain build for novel coronavirus SARS-CoV-2

    Python 1.4k 403

  2. augur augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 268 129

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 292 162

Repositories

Showing 10 of 89 repositories
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org’s past year of commit activity
    JavaScript 89 AGPL-3.0 49 74 (2 issues need help) 14 Updated Oct 18, 2024
  • seasonal-flu Public

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

    nextstrain/seasonal-flu’s past year of commit activity
    Python 44 26 25 3 Updated Oct 18, 2024
  • auspice Public

    Web app for visualizing pathogen evolution

    nextstrain/auspice’s past year of commit activity
    JavaScript 292 AGPL-3.0 162 233 (4 issues need help) 53 Updated Oct 18, 2024
  • 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.

    nextstrain/cli’s past year of commit activity
    Python 27 MIT 20 61 2 Updated Oct 18, 2024
  • WNV Public

    the repository used to build West Nile Virus for nextstrain

    nextstrain/WNV’s past year of commit activity
    Python 2 0 10 1 Updated Oct 18, 2024
  • ncov Public

    Nextstrain build for novel coronavirus SARS-CoV-2

    nextstrain/ncov’s past year of commit activity
    Python 1,353 MIT 403 71 21 Updated Oct 18, 2024
  • nextclade_data Public

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

    nextstrain/nextclade_data’s past year of commit activity
    Python 31 25 7 12 Updated Oct 18, 2024
  • nextclade Public

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

    nextstrain/nextclade’s past year of commit activity
    Rust 219 MIT 58 107 (31 issues need help) 18 Updated Oct 18, 2024
  • fauna Public

    RethinkDB database to support real-time virus analysis

    nextstrain/fauna’s past year of commit activity
    Python 33 AGPL-3.0 13 20 10 Updated Oct 17, 2024
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    nextstrain/augur’s past year of commit activity
    Python 268 AGPL-3.0 129 234 (1 issue needs help) 57 Updated Oct 17, 2024
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