A novel exploratory method for visual recombination detection
journal contributionposted on 2023-05-17, 02:22 authored by Strimmer, K, Forslund, K, Barbara HollandBarbara Holland, Moulton, V
A versatile visual approach for detecting recombination and identifying recombination breakpoints within a sequence alignment is presented. The method is based on two novel diagrams - the highway plot and the occupancy plot - that graphically portray phylogenetic inhomogeneity along an alignment, and can be viewed as a synthesis of two widely used but unrelated methods: bootscanning and quartet-mapping. To illustrate the method, simulated data and HIV-1 and influenza A datasets are investigated.
Publication titleGenome Biology
Department/SchoolSchool of Natural Sciences
PublisherBiomed Central Ltd
Place of publicationLondon, England
Rights statement© 2003 Strimmer et al.; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL