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dc.contributor.authorO'Connor, Timothy
dc.contributor.authorSundberg, Kenneth
dc.contributor.authorCarroll, Hyrum
dc.contributor.authorClement, Mark
dc.contributor.authorSnell, Quinn
dc.date.accessioned2011-06-16T15:49:53Z
dc.date.available2011-06-16T15:49:53Z
dc.date.issued2010-11-02
dc.identifier.citationBMC Genomics 2010, 11:S14
dc.identifier.issn1471-2164
dc.identifier.urihttp://www.dspace.cam.ac.uk/handle/1810/237787
dc.descriptionRIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are.
dc.description.abstractBACKGROUND: Long branch attraction (LBA) is a problem that afflicts both the parsimony and maximum likelihood phylogenetic analysis techniques. Research has shown that parsimony is particularly vulnerable to inferring the wrong tree in Felsenstein topologies. The long branch extraction method is a procedure to detect a data set suffering from this problem so that Maximum Likelihood could be used instead of Maximum Parsimony. RESULTS: The long branch extraction method has been well cited and used by many authors in their analysis but no strong validation has been performed as to its accuracy. We performed such an analysis by an extensive search of the branch length search space under two topologies of six taxa, a Felsenstein-like topology and Farris-like topology. We also examine a long branch shortening method. CONCLUSIONS: The long branch extraction method seems to mask the majority of the search space rendering it ineffective as a detection method of LBA. A proposed alternative, the long branch shortening method, is also ineffective in predicting long branch attraction for all tree topologies.
dc.language.isoen
dc.publisherSpringer Science and Business Media LLC
dc.rightsAll Rights Reserved
dc.rights.urihttps://www.rioxx.net/licenses/all-rights-reserved/
dc.titleAnalysis of long branch extraction and long branch shortening.
dc.typeArticle
dc.type.versionPublished Version
dc.date.updated2011-06-16T15:49:53Z
dc.rights.holderet al.; licensee BioMed Central Ltd.
prism.publicationNameBMC Genomics
pubs.declined2017-10-11T13:54:30.22+0100
rioxxterms.versionofrecord10.1186/1471-2164-11-S2-S14
dc.identifier.eissn1471-2164


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