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Performance of Matrix Representation with Parsimony for Inferring Species from Gene Trees

Author

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  • Wang Yuancheng

    (University of Canterbury)

  • Degnan James H

    (University of Canterbury)

Abstract

Phylogenomic datasets often contain sequence alignments on different subsets of taxa for different genes. A major goal of phylogenetics is often to combine estimated gene trees from many loci into an overall estimate of a species tree. When data are missing for some combinations of genes and taxa, supertree methods can be used to combine gene trees on different subsets of taxa into an overall tree. However, studies of the performance of supertree methods when gene tree conflict is due to incomplete lineage sorting are needed to understand their statistical properties in this setting.

Suggested Citation

  • Wang Yuancheng & Degnan James H, 2011. "Performance of Matrix Representation with Parsimony for Inferring Species from Gene Trees," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 10(1), pages 1-39, May.
    • Handle: RePEc:bpj:sagmbi:v:10:y:2011:i:1:n:21
    DOI: 10.2202/1544-6115.1611
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    References listed on IDEAS

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    1. Efromovich Sam & Salter Kubatko Laura, 2008. "Coalescent Time Distributions in Trees of Arbitrary Size," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 7(1), pages 1-30, January.
    2. Antonis Rokas & Barry L. Williams & Nicole King & Sean B. Carroll, 2003. "Genome-scale approaches to resolving incongruence in molecular phylogenies," Nature, Nature, vol. 425(6960), pages 798-804, October.
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