Whole Genome Phylogenetic Tree Reconstruction using Colored de Bruijn Graphs [article]

Cole Lyman
2017 Figshare  
We present kleuren, a novel assembly-free method to reconstruct phylogenetic trees using the Colored de Bruijn Graph. kleuren works by constructing the Colored de Bruijn Graph and then traversing it, finding bubble structures in the graph that provide phylogenetic signal. The bubbles are then aligned and concatenated to form a supermatrix, from which a phylogenetic tree is inferred. We introduce the algorithm that kleuren uses to accomplish this task, and show its performance on reconstructing
more » ... he phylogenetic tree of 12 Drosophila species. kleuren reconstructed the established phylogenetic tree accurately and is a viable tool for phylogenetic tree reconstruction using whole genome sequences. Software package available at: https://github.com/Colelyman/kleuren
doi:10.6084/m9.figshare.5532751.v1 fatcat:3vsm7woscjef3h2vtheef2qpdy