MC.Net
Phylogenetic networks are a generalization of phylogenetic trees that allow the representation of conflicting signals or alternative evolutionary histories in a single diagram. There are several methods for constructing these networks. MC-Net is A method for the construction of phylogenetic networks based on Monte-Carlo method. MC-Net finds a circular ordering for taxa, based on Monte-Carlo with simulated annealing, it then extracts splits from the circular ordering and uses non-negative least squares for weighting splits. One can use SplitsTree program to draw phylogenetic networks from weighted splits.

 

 

You can download program here

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