Molecular Phylogenetics and Evolution
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چکیده
In their article titled ‘‘Estimating species trees using approximate Bayesian computation’’ Fan and Kubatko present an algorithm called ST-ABC to sample the posterior distribution of species trees (Molecular Phylogenetics and Evolution 59: 354– 363). The authors claim that ST-ABC is an approximate Bayesian computation (ABC) algorithm. Here, I argue that one of the steps in their algorithm differs from the approach that would be taken by a proper ABC algorithm. Therefore, the distribution sampled by ST-ABC might not approximate the true posterior distribution as in proper ABC algorithms. As a consequence, the estimates based on posterior samples obtained by ST-ABC might not recover the true species tree. ABC algorithms sample an approximate form of the posterior distribution of a parameter of interest without directly evaluating the likelihood of the parameter given the data (Tavaré et al., 1997; Beaumont et al., 2002; Marin et al., 2011). Given the observed data set D, a prior distribution pðhÞ for parameter h, and a probability model PðxjhÞ, an ideal version of ABC algorithm where there is no approximation error proceeds as follows:
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Article history: Received 26 February 2008 Revised 1 August 2008 Accepted 5 August 2008 Available online xxxx
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