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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 88 AGPL-3.0 49 74 (2 issues need help) 10 Updated Oct 5, 2024
  • auspice Public

    Web app for visualizing pathogen evolution

    nextstrain/auspice’s past year of commit activity
    JavaScript 292 AGPL-3.0 162 229 (4 issues need help) 49 Updated Oct 5, 2024
  • WNV Public

    the repository used to build West Nile Virus for nextstrain

    nextstrain/WNV’s past year of commit activity
    Python 2 0 5 1 Updated Oct 4, 2024
  • 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 32 9 Updated Oct 4, 2024
  • nipah Public
    nextstrain/nipah’s past year of commit activity
    Python 0 0 1 0 Updated Oct 4, 2024
  • ncov Public

    Nextstrain build for novel coronavirus SARS-CoV-2

    nextstrain/ncov’s past year of commit activity
    Python 1,354 MIT 403 70 20 Updated Oct 4, 2024
  • infra Public

    Nextstrain shared infrastructure

    nextstrain/infra’s past year of commit activity
    Makefile 0 0 2 0 Updated Oct 4, 2024
  • pathogen-repo-guide Public template
    nextstrain/pathogen-repo-guide’s past year of commit activity
    Python 4 1 17 0 Updated Oct 3, 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 3, 2024
  • forecasts-ncov Public

    SARS-CoV-2 variant growth rates and frequency forecasts

    nextstrain/forecasts-ncov’s past year of commit activity
    Python 7 2 10 6 Updated Oct 3, 2024
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