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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.
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COPYRIGHT NOTICE
This file is part of the "Universal Biomedical Skills" project.
Copyright (c) 2026 MD BABU MIA, PhD <md.babu.mia@mssm.edu>
All Rights Reserved.
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This code is proprietary and confidential.
Unauthorized copying of this file, via any medium is strictly prohibited.
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Provenance: Authenticated by MD BABU MIA
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Outbreak Pipeline
Complete workflow for genomic epidemiology: from pathogen isolates to transmission networks and outbreak characterization.
Wor
[Description truncada. Veja o README completo no GitHub.]
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