R: Draw Additional Edges on a Plotted Tree

edges {ape} | R Documentation

## Draw Additional Edges on a Plotted Tree

### Description

`edges` draws edges on a plotted tree. `fancyarrows` enhances `arrows` with triangle and harpoon heads; it can be called from `edges`.

### Usage

    edges(nodes0, nodes1, arrows = 0, type = "classical", ...)
    fancyarrows(x0, y0, x1, y1, length = 0.25, angle = 30, code = 2,
                col = par("fg"), lty = par("lty"), lwd = par("lwd"),
                type = "triangle", ...)

### Arguments

`nodes0, nodes1` | vectors of integers giving the tip and/or node numbers where to start and to end the edges (eventually recycled).
`arrows` | an integer between 0 and 3; 0: lines (the default); 1: an arrow head is drawn at `nodes0`; 2: at `nodes1`; 3: both.
`type` | if the previous argument is not 0, the type of arrow head: `"classical"` (just lines, the default), `"triangle"`, `"harpoon"`, or any unambiguous abbreviations of these. For `fancyarrows` only the last two are available.
`x0, y0, x1, y1` | the coordinates of the start and end points for `fancyarrows` (these are not recycled and so should be vectors of the same length).
`length, angle, code, col, lty, lwd` | default options similar to those of `arrows`.
`...` | further arguments passed to `segments`.

### Details

The first function is helpful when drawing reticulations on a phylogeny, especially if computed from the edge matrix.

### Author(s)

Emmanuel Paradis

### See Also

`plot.phylo`, `nodelabels`

### Examples

    set.seed(2)
    tr <- rcoal(6)
    plot(tr, "c")
    edges(10, 9, col = "red", lty = 2)
    edges(10:11, 8, col = c("blue", "green")) # recycling of 'nodes1'
    edges(1, 2, lwd = 2, type = "h", arrows = 3, col = "green")
    nodelabels()

[Package ape version 4.1 Index]