order.edges: order.edges
In santiagosnchez/rBt: r BEAST tools (rBt)

Description Usage Arguments Value Note See Also Examples

View source: R/order.edges.R

Gets the edge index ordered by node (e.g. order by node index). This function is practical for plotting node values on edges instead of nodes.

1	order.edges(phy)

phy

tree, phylo object

numeric vector with edge indices

tree files read by read.beast.annot will include an element with ordered edges: phy$edge.ordered

edgelabels read.beast.annot

file <- system.file("data/trees/mcc.tre", package="rBt")
tr <- read.nexus(tr)
nodes <- (length(tr$tip.label)+1):(length(tr$tip.label)+tr$Nnode)
edges.ordered <- order.edges(tr)
plot(tr)
edgelabels(edge=edges.ordered, text=nodes[-1]) # -1 is needed to exclude the root node