Phylogenetic Monte Carlo


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Documentation for package ‘pmc’ version 0.0-8

Help Pages

anoles The anoles data set
convert toggles between ouch and ape format trees
fitContinuous_object wrapper for fitContinuous
format_data format data in ape format into ouch format
matchformats Internal helper function to match data formats
mrcaOUCH Finds the most recent common ancestor on an OUCH formatted tree
paintBranches Paints branches with regimes changing at nodes specified
plot.pmc plot the distributions
plot_pars plot the parameter distributions
pmc Performs a phylogenetic monte carlo between modelA and modelB
pmc_fit Fit any model used in PMC
simulate.fitContinuous simulate method
simulate_and_update Internal helper function Simulates under model A, updates both A and B based on that data
tree The phylogeny for the anoles data set
treepalette flexible regime coloring for trees
treepower function to create the power curve for a tree
update.fitContinuous update a fitContinuous model