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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 404

  2. augur augur Public

    Pipeline components for real-time phylodynamic analysis

    Python 268 127

  3. auspice auspice Public

    Web app for visualizing pathogen evolution

    JavaScript 290 159

Repositories

Showing 10 of 85 repositories
  • 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 35 MIT 20 31 9 Updated Jul 20, 2024
  • augur Public

    Pipeline components for real-time phylodynamic analysis

    nextstrain/augur’s past year of commit activity
    Python 268 AGPL-3.0 127 210 (1 issue needs help) 60 Updated Jul 19, 2024
  • yellow-fever Public
    nextstrain/yellow-fever’s past year of commit activity
    Python 0 4 2 1 Updated Jul 19, 2024
  • docker-base Public

    Docker image build for nextstrain/base

    nextstrain/docker-base’s past year of commit activity
    Shell 12 6 10 6 Updated Jul 19, 2024
  • conda-base Public

    Conda package build for nextstrain-base

    nextstrain/conda-base’s past year of commit activity
    Shell 1 1 9 4 Updated Jul 19, 2024
  • measles Public

    Nextstrain build for measles virus

    nextstrain/measles’s past year of commit activity
    Python 0 6 5 4 Updated Jul 19, 2024
  • nextclade Public

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

    nextstrain/nextclade’s past year of commit activity
    Rust 206 MIT 58 100 (30 issues need help) 17 Updated Jul 19, 2024
  • .github Public
    nextstrain/.github’s past year of commit activity
    Shell 8 11 4 0 Updated Jul 18, 2024
  • infra Public

    Nextstrain shared infrastructure

    nextstrain/infra’s past year of commit activity
    Makefile 0 0 1 0 Updated Jul 18, 2024
  • rsv Public

    Workflow for RSV analyses on Nextstrain.org

    nextstrain/rsv’s past year of commit activity
    Python 6 2 5 3 Updated Jul 18, 2024
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