Choosing The Best Model
Choice of an appropriate model is critical for the production of good phylogenetic analyses. Both underparameterised or overly restrictive models may produce aberrant behaviour when their underlying assumptions are violated, while overly complex or overparameterised models require long run times and their parameters may be overfit. The most common method of model selection is the "Likelihood Ratio Test" which produces an estimate of the fit between the model and the data, but as an alternative the Akaike Information Criterion or the Bayesian Information Criterion can be used. Model selection computer programs are available.
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