subtreeShow {phyloTop} | R Documentation |
Highlight a subtree
Description
Plot a tree, highlighting the clade(s) descending from the given node(s)
Usage
subtreeShow(
tree,
nodeList,
showNodeLabels = "nodeList",
mainCol = "black",
subtreeCol = "red",
nodeLabelCol = "lightblue",
...
)
Arguments
tree |
a tree of class |
nodeList |
a list of one or more internal nodes in the tree. |
showNodeLabels |
option of whether to show node labels. Default is "nodeList", which only labels the nodes in |
mainCol |
colour for the edges which are not highlighted (default is black). |
subtreeCol |
colour for the edges which are highlighted (default is red). |
nodeLabelCol |
background colour for any node labels shown (default is light blue) |
... |
further arguments to be passed to plot.phylo |
Value
A plot of the tree, with clade(s) descending from the given node(s) highlighted.
Author(s)
Michelle Kendall michelle.louise.kendall@gmail.com
Examples
## Highlight the clade(s) descending from nodes 23 and 35 in a random tree on 20 tips:
tree <- rtree(20)
subtreeShow(tree, nodeList=c(23,35))
# change aesthetics:
subtreeShow(tree,nodeList=c(23,35), mainCol="navy", subtreeCol="cyan",
nodeLabelCol="cyan", edge.width=2)