Implement SIMMAP in R
SIMMAP creates a stochastic simulation of discrete character trait evolution on a phylogenetic tree. This is a realization from the Bayesian posterior distribution of possible transitions given the tip data and the tree.
Desired functions:
A) Stochastic simulation under a given model
B) Infer the stochastic model
Notes:
a) Should implement an arbitrary size finite state Markov model
b) Should provide fast visualization or realizations
3
votes
AdminCarl
(Admin, Comparative Phylogenetics)
shared this idea
1 comment
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This should be incorporated into the ouch package as a way of generating possible paintings. Will require either a simmap that allows changes only at nodes or a modification of the ouch code to allow changes along a branch.