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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 299 166

Repositories

Showing 10 of 94 repositories
  • 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 62 5 Updated Mar 4, 2025
  • docker-base Public

    Docker image build for nextstrain/base

    nextstrain/docker-base’s past year of commit activity
    Shell 12 6 12 4 Updated Mar 4, 2025
  • seasonal-flu Public

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

    nextstrain/seasonal-flu’s past year of commit activity
    Python 47 27 28 0 Updated Mar 4, 2025
  • WNV Public

    the repository used to build West Nile Virus for nextstrain

    nextstrain/WNV’s past year of commit activity
    Python 4 0 6 2 Updated Mar 4, 2025
  • avian-flu Public

    Nextstrain build for avian influenza viruses

    nextstrain/avian-flu’s past year of commit activity
    Python 24 10 14 7 Updated Mar 4, 2025
  • nextstrain.org Public

    The Nextstrain website

    nextstrain/nextstrain.org’s past year of commit activity
    JavaScript 95 AGPL-3.0 50 69 12 Updated Mar 3, 2025
  • nextclade_data Public

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

    nextstrain/nextclade_data’s past year of commit activity
    Python 33 27 8 14 Updated Mar 3, 2025
  • ncov-clades-schema Public

    Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain

    nextstrain/ncov-clades-schema’s past year of commit activity
    JavaScript 13 8 4 4 Updated Mar 3, 2025
  • zika Public

    Nextstrain build for Zika virus

    nextstrain/zika’s past year of commit activity
    Python 8 10 3 3 Updated Mar 3, 2025
  • dengue Public

    Nextstrain build for dengue virus

    nextstrain/dengue’s past year of commit activity
    Python 8 12 12 (1 issue needs help) 0 Updated Mar 3, 2025
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