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Molecular Biology and Evolution 17:401-405 (2000)
© 2000 Society for Molecular Biology and Evolution

Articles

On the Optimization Principle in Phylogenetic Analysis and the Minimum-Evolution Criterion

Olivier Gascuel

Département Informatique Fondamentale et Applications, LIRMM, Montpellier, France

This paper discusses the optimization principle in phylogenetic analysis, in the case of distance data. We argue that the use of this principle cannot be called into question, except for computing time reasons. We show that the minimum-evolution criterion is not perfectly suited for distance data estimated from sequences, and we present another approach, implemented in the BIONJ algorithm, which allows the data features to be taken into account, while being less demanding in computing time. Simulations show that BIONJ significantly outperforms NJ.


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