bio-workflows-outbreak-pipeline

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End-to-end outbreak investigation from pathogen isolates to transmission networks. Orchestrates MLST typing, AMR surveillance, phylodynamic dating, and transmission inference with TransPhylo. Use when investigating disease outbreaks or tracking pathogen transmission chains.

By tools-only schedule Updated 2/4/2026

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Install via CLI

npx skills add https://github.com/tools-only/X-Skills --skill bio-workflows-outbreak-pipeline

Repository Details

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Occupations

Epidemiologists