Regimes associated with branches in a tree

PCMTreeMatchRegimesWithModel(tree, model,
  preorder = PCMTreePreorder(tree))

Arguments

tree

a phylo object

model

a PCM object

preorder

an integer vector of row-indices in tree$edge matrix as returned by PCMTreePreorder. This can be given for performance speed-up when several operations needing preorder are executed on the tree. Default : PCMTreePreorder(tree).

Value

an integer vector with entries corresponding to the rows in tree$edge denoting the regime on each branch in the tree as an index in PCMRegimes(model).