Figure 1
From: Impact of homologous and non-homologous recombination in the genomic evolution of Escherichia coli
Genomic analytical pipeline used in this study. The genomes are first aligned using Mauve, and the core-genome is used to estimate the clonal genealogy using ClonalFrame. Non-core regions are then interpreted in terms of non-homologous recombination events on the branches of the clonal genealogy using GenoPlast, whereas core regions are analyzed using ClonalOrigin to infer homologous recombination events and their origins on the clonal genealogy.