Description Usage Arguments Details Value See Also
Simulates tip states on a phylogeny according to a continuous-time Markov model of evolution.
1 2 |
tree |
A tree object of class |
rate.mat |
A continuous-time Markov chain (CTMC) rate matrix. |
root.dist |
A numeric vector defining the root distribution of the evolutionary process on the tree. If this process starts at stationarity (as is commonly assumed), then the root distribution is equal to the CTMC stationary distribution. |
scale |
A logical indicating whether to scale the time dimension. If
|
states |
A character or integer vector denoting the CTMC state space.
Defaults to the set of DNA nucleotides |
N |
An integer specifying the number of samples to draw. |
More information on phylogenetic tree objects of class "phylo"
can be
found at http://ape-package.ird.fr/misc/FormatTreeR_24Oct2012.pdf.
A character or integer matrix with dimensions
c(length(tree$tip.label), N)
, where each column contains an
independent sample of terminal node states.
int.states.sim
, phylojumps.sim
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