Hello, biostars! Imagine, if you have several consensus trees from several MCMC runs implemented in MrBayes (4 for example). All analyses were different, under different models and priors. Now you want to compare topology of your trees. They are very long and it's difficult task for eyes to compare such ramous, long trees. First of all (as usually I do) - googling. I found package for Mesquite, but It's "under construction" science 2001 and not included in available mesquite version.
What would you do? Any packages, scripts or something?
2 answers
I highly recommend Dendroscope. It calculates a final consensus tree from a set of large trees (e.g. consensus trees calculated from MrBayes). The program can be used interactively or in command-line mode.
If you are in a hurry use METATREE for comparing multiple alternative phylogenies.
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