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Pan-genome SNP analysis by kSNP
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The collections of SNPs present in both the core and accessory genomes were analyzed using kSNP version 3.0 (Gardner et al., 2015). De novo assembled contigs from each of the 38 S. Adjame strains were used as inputs for kSNP to generate the pan-genome-based SNP analysis. The outputs generated included all the identified SNPs and a consensus of the most parsimonious phylogenetic tree.
Copyright and License information: ©2023 Gao, Duceppe, Chattaway, Goodridge and Ogunremi.
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