Mac5 A program for phylogenetic reconstruction using gapped data
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estimate reconstruct reconstruct phylogeny phylogeny reconstruction phylogenetic tree estimator phylogeny

Mac5 Description

A program for phylogenetic reconstruction using gapped data MAC5 is a program which implements MCMC sampling to be able to estimate a phylogenetic tree from a DNA multiple alignment. What differentiates MAC5 from similar programs (e.g. BAMBE, MrBayes) is its use of five-state sequence evolution models as a means to include the gap information when estimating an alignment. Despite vilification of these models in the literature in the past (e.g., Durbin et al., 1998, p. 217), it has been found that, in many circumstances, they are useful for improving the precision of topology estimation.

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