Diachronica · 2013 · 67 citations · 28 references
Life SciencesBioinformaticsEvolutionary BiologyComparative LinguisticsPhylogeneticsSystematicsPhylogenetic AnalysisPhylogenetic Comparative MethodsPhylogenetic TheoryPhylogenetic Tree ReconstructionCharacter HomoplasyHomoplasyHomoplasy AnalysisMaximum ParsimonyNeighbor-joiningNeighbor-joining AnalysisPhylogenetic ReconstructionPhylogenetic Reconstruction Models
This paper reports a simulation study comparing and evaluating the performance of different linguistic phylogeny reconstruction methods on model datasets for which the true trees are known. UPGMA performed least well, then (in ascending order) neighbor joining, the method of Gray & Atkinson and finally maximum parsimony. Weighting characters greatly improves the accuracy of maximum parsimony and maximum compatibility if the characters with high weights exhibit low homoplasy.
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MRBAYES: Bayesian inference of phylogeny
John P. Huelsenbeck, Fredrik Ronquist · Bioinformatics · 2001 · 4.9K citations
Comparison of phylogenetic trees
D. F. Robinson, L. R. Foulds · Mathematical Biosciences · 1981 · 2.9K citations