Hi, I've trying to fit some BiSSE models in diversitree onto a set of fairly large trees (>9k species) stored as a multiphylo object. However, due to the size of the trees it quickly becomes a very time-consuming task to fit such models to each individual tree.
Given that the implementation in diversitree uses an MCMC approach, I would imagine that it is pretty straightforward in principle to fit the model sampling trees from the multiphylo object in proportion to their probability (in the same way as the parameter estimation). However, this doesn't seem to be implemented in diversitree. Is there a quick change to the relevant code that would run MCMC analyses of BiSSE models in diversitree, or alternative another package that would fit these but incorporating phylogenetic uncertainty using a set of phylogenies. Thanks, Kev [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/