pegas (version 0.10)

replot: Edit the Layout of a Haplotype Network

Description

This function makes possible to change the layout of a haplotype network interactively or with specified coordinates.

Usage

replot(xy = NULL, ...)

Arguments

xy

an optional list with vectors names x and y (or xx and yy) giving the coordinates of the nodes.

…

further arguments passed to plot.

Value

a named list with two numeric vertors (x and y).

Details

This function can be used in two ways. By default (i.e., replot()), the user can edit a plotted haplotype network by clicking with the mouse on the graphical window: a message is printed asking to click once close to the node to move and then clicking again where this node should be placed (careful: two separate single clicks). Editing is stopped with a right click.

The second possible use is to specify the new coordinates of the nodes with the argument xy, typically, from a previous call to replot (see examples).

See Also

haploNet, haploFreq

Examples

# NOT RUN {
data(woodmouse)
net <- haploNet(haplotype(woodmouse))
plot(net)
o <- replot() # interactive
## click to rearrange the network at will...
## then do a different plot using the same coordinates:
plot(net, bg = "red", labels = FALSE, show.mutation = 2)
replot(o) # not interactive
# }