Modeling compositional heterogeneity.

@article{Foster2004ModelingCH,
  title={Modeling compositional heterogeneity.},
  author={Peter G Foster},
  journal={Systematic biology},
  year={2004},
  volume={53 3},
  pages={
          485-95
        }
}
Compositional heterogeneity among lineages can compromise phylogenetic analyses, because models in common use assume compositionally homogeneous data. Models that can accommodate compositional heterogeneity with few extra parameters are described here, and used in two examples where the true tree is known with confidence. It is shown using likelihood ratio tests that adequate modeling of compositional heterogeneity can be achieved with few composition parameters, that the data may not need to… CONTINUE READING
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