Tree Explorer With Multiple Devices
This function requires a plotted tree: the user is invited to click close to a node and the corresponding subtree (or clade) is plotted on a new window.
trex(phy, title = TRUE, subbg = "lightyellow3", return.tree = FALSE, ...)
This function works with a tree (freshly) plotted on an interactive
graphical device (i.e., not a file). After calling
user clicks close to a node of the tree, then the clade from this node
is plotted on a new window. The user can click as many times on
the main tree: the clades are plotted successively on the same
new window. The process is stopped by a right-click. If the user clicks
too close to the tips, a message ``Try again!'' is printed.
trex is called, the subtree is plotted on a new
window without closing or deleting those possibly already
plotted. They may be distinguished with the options
In all cases, the device where
phy is plotted is the active
window after the operation. It should not be closed during the
title = TRUE, a default title is printed on the new window
using the node label, or the node number if there are no node labels
in the tree. If
title = FALSE, no title is printed. If
title is a character string, it is used for the title.
an object of class
return.tree = TRUE
tr <- rcoal(1000) plot(tr, show.tip.label = FALSE) trex(tr) # left-click as many times as you want, then right-click tr <- makeNodeLabel(tr) trex(tr, subbg = "lightgreen") # id. ## generate a random colour with control on the darkness: rRGB <- function(a, b) rgb(runif(1, a, b), runif(1, a, b), runif(1, a, b)) ### with a random pale background: trex(tr, subbg = rRGB(0.8, 1)) ## the above can be called many times... graphics.off() # close all graphical devices