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Script that labels phylogenetic clades based on the clade of the nearest neighbor using patristic distances determined from the tree.
Python 9 6
Simple Manipulation Of Trees
Python 13 4
Phylogenetic network inference for reassortment detection using rf-net-2
6 1
Phylogenetic maximum representation sampling: choosing most representative strains or taxa
Python 29 2
Zeller et al. Logistic regression classifier for genetic sequences
Python 3 1
Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
Python 8
Library for phylogenetic trees
data and code to support Baker et al. HPAI H5N1 in dairy cattle
A pipeline for the analysis of Illumina sequence data from Influenza viruses
A Shiny app for swine IAV surveillance
flu-crew datasets used in manuscripts, tutorials, and other work.
code to reproduce analysis in Nguyen et al.
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