A novel exploratory method for visual recombination detection

Korbinian Strimmer; Kristoffer Forslund; Barbara Holland; Vincent Moulton

doi:10.1186/gb-2003-4-5-r33

A novel exploratory method for visual recombination detection

Korbinian Strimmer
, Kristoffer Forslund
, Barbara Holland
, Vincent Moulton

Research output: Contribution to journal › Article › peer-review

19 Citations (Scopus)

Abstract

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.

Original language	English
Article number	R33
Journal	Genome Biology
Volume	4
DOIs	https://doi.org/10.1186/gb-2003-4-5-r33
Publication status	Published - 2003

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Access to Document

10.1186/gb-2003-4-5-r33Licence: CC BY

Cite this

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title = "A novel exploratory method for visual recombination detection",

abstract = "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.",

author = "Korbinian Strimmer and Kristoffer Forslund and Barbara Holland and Vincent Moulton",

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T1 - A novel exploratory method for visual recombination detection

AU - Strimmer, Korbinian

AU - Forslund, Kristoffer

AU - Holland, Barbara

AU - Moulton, Vincent

PY - 2003

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N2 - 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.

AB - 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.

U2 - 10.1186/gb-2003-4-5-r33

DO - 10.1186/gb-2003-4-5-r33

M3 - Article

SN - 1465-6906

VL - 4

JO - Genome Biology

JF - Genome Biology

M1 - R33

ER -