plotElementTransitions: Plot turnover events on the tree

In ndukler/phyloGLM: Tests for signals of variable rates of evolution between gene classes and lineages for probabalistic alleles

Description

Plots tree with various helpful highlightings

Arguments

model	rateModel
aggregate	the type of aggregation to perform (either "edge" or "node", see marignalTransitions)
excludeNodes	Indicates nodes that should be excluded from the per-edge aggregated statistic (1-based).
excludeEdges	Indicates edges that should be excluded from the per-node aggregated statistic (edge ids based on integer id of child, use plotTree(model) to view).
offset	How much to offset tip labels by
xmax	Maximum value of x axis in tree plots (Note: if you want different x axis for different tree plots use xlim_expand on the returned object)
nodeLabels	if TRUE label nodes with numbers
tipLabels	if TRUE label tips with names

ndukler/phyloGLM documentation built on Sept. 25, 2019, 9:17 p.m.