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I wrote a short guide on how to build both alignment-free and reference-based prokaryote phylogenetic trees from SNP alignments without using snippy, check it out

https://www.bacpop.org/guides/building_trees_with_ska/

#bioinformatics #genomics

Building trees with SKA

SKA is a tool for comparing small and highly similar genomes using split k-mers. This guide will explain how to use SKA to build a phylogenetic tree for different Escherichia coli lineages in a few minutes.
www.bacpop.org
#bioinformatics #genomics

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