simOverTrees: simOverTrees This function will simulate the expected change...
In hferg/hfgr:

simOverTrees This function will simulate the expected change over a vector of named trees. It calls cladeChangeSim a bunch of times.

1 2	simOverTrees(tree, reftrees, nsim, node, sigsq, direction = "non", increment = NULL, lead = FALSE)

`tree`	The original tree.
`reftrees`	A vector of trees that differ to the original tree on which to simulate the change.
`nsim`	The number of simulations per tree.
`node`	A node from which to conduct the simulation.
`sigsq`	A single sigma squared for the simulation, or a vector of them in the order of the trees.
`direction`	Positive selection ("pos"), negative selection ("neg"), or non directional ("non")?
`increment`	The size of the time interval each branch is broken down into, if NULL is calculated automatically, but may not be comparable between runs.
`lead`	Include the leading branch to the node in the simulations?