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nextstrain

Nextstrain

Real-time tracking of pathogen evolution

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ncov Public template

Nextstrain build for novel coronavirus SARS-CoV-2

Python 1.3k 394
augur Public

Pipeline components for real-time phylodynamic analysis

Python 209 110
auspice Public

Web app for visualizing pathogen evolution

JavaScript 274 166

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

TypeScript 146 MIT 53 136 (63 issues need help) 20 Updated Dec 10, 2022
bioconda-recipes Public
Fork for maintaining Nextstrain-related recipes and submitting PRs upstream.

Shell 0 2,440 2 0 Updated Dec 10, 2022
augur Public
Pipeline components for real-time phylodynamic analysis

Python 209 AGPL-3.0 110 145 (1 issue needs help) 42 Updated Dec 10, 2022
auspice Public
Web app for visualizing pathogen evolution

JavaScript 274 AGPL-3.0 166 188 (5 issues need help) 49 Updated Dec 10, 2022
seasonal-flu Public
Scripts. config, and snakefiles for seasonal-flu nextstrain builds

Python 24 18 19 3 Updated Dec 10, 2022
nextstrain.org Public
The Nextstrain website

JavaScript 84 AGPL-3.0 49 41 (1 issue needs help) 34 Updated Dec 9, 2022
conda-base Public
Conda package build for nextstrain-base

Shell 1 0 3 1 Updated Dec 9, 2022
monkeypox Public
Nextstrain build for monkeypox virus

Python 32 MIT 13 13 3 Updated Dec 9, 2022
rsv Public
Workflow for RSV analyses on Nextstrain.org

Python 1 0 0 0 Updated Dec 9, 2022
nextclade_data Public
Datasets for https://github.com/nextstrain/nextclade

Python 15 12 10 1 Updated Dec 9, 2022