Paint the Branches of a Tree
A wrapper to the
paint function in
ouch to ensure that regime paintings are automatically formatted for SURFACE analysis (painting the stem branch of a clade and ensuring that the root is assigned a regime)
Phylogenetic tree in
Named character vector of regime shifts
A logical indicating whether the painting of a clade should include the stem branch; defaults to
A named character vector of regime assignments for each branch, as returned by
Butler, M.A. & King, A.A. (2004) Phylogenetic comparative analysis: a modeling approach for adaptive evolution. American Naturalist 164: 683-695.
Ingram, T. & Mahler, D.L. (2013) SURFACE: detecting convergent evolution from comparative data by fitting Ornstein-Uhlenbeck models with stepwise AIC. Methods in Ecology and Evolution 4: 416-425.