Papers in this group
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Approximate Bayesian computation (ABC) have become a essential tool for the analysis of complex stochastic models. Earlier, Grelaud et al. (2009) advocated the use of ABC for Bayesian model choice in the specific case of Gibbs random fields, relying…
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A phylogenetic tree comprising clades with high bootstrap values or other strong measures of statistical support is usually interpreted as providing a good estimate of the true phylogeny. Convergent evolution acting on groups of characters in…
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BACKGROUND: Posterior mapping is an increasingly popular hierarchical Bayesian based method used to infer character histories and reconstruct ancestral states at nodes of molecular phylogenies, notably of morphological characters. As for all…
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Determining the appropriate gene for phylogeny reconstruction can be a difficult process. Rapidly evolving genes tend to resolve recent relationships, but suffer from alignment issues and increased homoplasy among distantly related species.…
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Bipartition support in maximum-likelihood (ML) analysis is most commonly assessed using the nonparametric bootstrap. Although bootstrap replicates should theoretically be analyzed in the same manner as the original data, model selection is almost…
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BACKGROUND: One of the challenges of bioinformatics remains the recognition of short signal sequences in genomic DNA such as donor or acceptor splice sites, splicing enhancers or silencers, translation initiation sites, transcription start sites,…
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We prove that a certain Markov chain for phylogenetic reconstruction using SPR transitions converges quickly to its stationary distribution when the data is generated from a tree with sufficiently short branch lengths. Our proofs express the leading…
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We show that the Bayesian star paradox, first proved mathematically by Steel and Matsen for a specific class of prior distributions, occurs in a wider context including less regular, possibly discontinuous, prior distributions.
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