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Low-parameter phylogenetic estimation under the general Markov model
Markov invariants phylogenetic invariants base-composition rate-variation quartets supertrees
2012/4/20
In their 2008 and 2009 papers, Sumner and colleagues introduced the "squangles" - a small set of Markov invariants for phylogenetic quartets. The squangles are consistent with the general Markov model...
What use are Exponential Weights for flexi-Weighted Least Squares Phylogenetic Trees?
Exponential Weights flexi-Weighted Least Squares Phylogenetic Trees
2010/12/30
The method of flexi-Weighted Least Squares on evolutionary trees uses simple polynomial or exponential functions of the evolutionary distance in place of model-based variances. This has the advantage ...
The algebra of the general Markov model on phylogenetic trees and networks
general Markov model phylogenetic trees
2010/12/30
It is known that the Kimura 3ST model of sequence evolution on phylogenetic trees can be extended quite naturally to arbitrary split systems. However, this extension relies heavily on mathematical pec...