Invariant Based Quartet Puzzling

Details Invariant Based Quartet Puzzling Invariant Based Quartet Puzzling

2011-10-27

arxiv.org/abs/1110.6194v1

Biology

Quantitative Biology

Populations and Evolution

9 pages 1 figure

Scientific paper

Traditional Quartet Puzzling algorithms use maximum likelihood methods to reconstruct quartet trees, and a puzzling algorithm to combine these quartets into a tree for the full collection of $n$ taxa. We propose a variation of Quartet Puzzling in which the quartet trees are reconstructed using biologically symmetric invariants. We find that under certain conditions, invariant based quartet puzzling outperforms Quartet Puzzling using maximum likelihood.

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