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Joint amalgamation of most parsimonious reconciled gene trees

Abstract : Traditionally, gene phylogenies have been reconstructed solely on the basis of molecular sequences; this, however, often does not provide enough information to distinguish between statistically equivalent relationships. To address this problem, several recent methods have incorporated information on the species phylogeny in gene tree reconstruction, leading to dramatic improvements in accuracy. Although probabilistic methods are able to estimate all model parameters but are computationally expensive, parsimony methods-generally computationally more efficient-require a prior estimate of parameters and of the statistical support.
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https://hal.archives-ouvertes.fr/hal-02154935
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Celine Scornavacca, Edwin Jacox, Gergely Szöllősi. Joint amalgamation of most parsimonious reconciled gene trees. Bioinformatics, Oxford University Press (OUP), 2015, 31 (6), pp.841-848. ⟨10.1093/bioinformatics/btu728⟩. ⟨hal-02154935⟩

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