Homoplasic SNPs were identified by examining the SNP allele pattern across all isolates in relation to the phylogenetic tree.
From the nature.com
Phylogenetic theory is used to test the distributions of traits and their various forms to provide explanations of observed patterns in relation to their evolutionary history.
From the en.wikipedia.org
Phylogenetic theory is used to test the independent distributions of traits and their various forms to provide explanations of observed patterns in relation to their evolutionary history and biology.