repaint


Phylogenetic tree in <code>ouchtree</code> format


otree


Named character vector of regime shifts


regshifts


A logical indicating whether the painting of a clade should include the stem branch; defaults to <code>TRUE</code>, and is set to <code>TRUE</code> during all calls within the <code>surface</code> functions


stem


A wrapper to the <code>paint</code> function in <code>ouch</code> 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)


manip

SURFACE is a data-driven phylogenetic comparative method for fitting stabilizing selection models to continuous trait data, building on the ouch package. The main functions fit a series of Hansen models using stepwise AIC, then identify cases of convergent evolution where multiple lineages have shifted to the same adaptive peak.

repaint: Paint the Branches of a Tree

Description

Usage

Arguments

Value

References