treeducken simulates cophylogenetic systems such as host and symbiont pairs.
This is done using the
sim_cophylo_bdp function. This function simulates
a host tree and a symbiont tree simultaneously using a matrix describing the
associations between contemporaneous hosts and symbionts. These simulations
allow for varying rates of host-shift speciation and cospeciation in addition
to independent birth and death rates of the host and the symbiont trees.
treeducken is also able to simulate nested phylogenies such as might be
expected in the case of gene tree and species tree scenarios.
Wade Dismukes <email@example.com>
Dismukes W. and Tracy A. Heath, Something something (work-in-progress)
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