Plot a tree, highlighting any ladders within it.
ladderShow(
tree,
mainCol = "black",
ladderEdgeCol = "red",
ladderNodeCol = "red",
...
)Arguments
- tree
a tree of class
phyloorphylo4. The tree should be binary and rooted; if not it will be coerced into a binary rooted tree using multi2di, if possible.- mainCol
colour for edges which are not ladders (default is black)
- ladderEdgeCol
colour for ladder edges (default is red)
- ladderNodeCol
colour for ladder nodes (default is red)
- ...
further arguments to be passed to plot.phylo
Value
A plot of the tree, with ladder edges and nodes highlighted by colour.
See also
Examples
## Highlight in blue the ladders in a random tree with 50 tips:
tree <- rtree(50)
ladderShow(tree, edge.width=2)
# compare to:
ladderSizes(tree)
#> $ladderSizes
#> [1] 4 2 2 2
#>
#> $ladderNodes
#> [1] 52 53 60 61 92 93 95 96 97 98
#>
#> $ladderEdges
#> [1] 89 90 91 3 18 83
#>