I am playing around with synthetic cophylogenetic data. In one example, which represents a very extreme case of high agreement between the host and parasite phylogenies (the data was generated with 51 cospeciation, 2 sorting and 1 duplication events), I get a warning when using ace() to label the cophylogenetic nodes of the parasite tree:
Where Pfreq[,2] is a vector of frequencies:
The following works fine
but I have noticed that there is a NA in fit.P$sigma2. It would be nice to know whether this warning is important or not.
Thank you very much for your attention.
Juan A. Balbuena
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