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Phylogenetic Clustering by Linear Integer Programming (PhyCLIP)

6 Mar 2019

Abstract excerpt

Subspecies nomenclature systems of pathogens are increasingly based on sequence data. The use of phylogenetics to identify and differentiate between clusters of genetically similar pathogens is particularly prevalent in virology from the nomenclature of human papillomaviruses to highly pathogenic avian influenza (HPAI) H5Nx viruses. These nomenclature systems rely on absolute genetic distance thresholds to define...

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PMID: 30854550
DOI: 10.1093/molbev/msz053

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