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## identify.phylo.R (2011-03-23)
## Graphical Identification of Nodes and Tips
## Copyright 2008-2011 Emmanuel Paradis
## This file is part of the R-package `ape'.
## See the file ../COPYING for licensing issues.
identify.phylo <- function(x, nodes = TRUE, tips = FALSE,
labels = FALSE, quiet = FALSE, ...)
{
if (!quiet)
cat("Click close to a node of the tree...\n")
xy <- locator(1)
if (is.null(xy)) return(NULL)
lastPP <- get("last_plot.phylo", envir = .PlotPhyloEnv)
## rescale the coordinates (especially if the x- and
## y-scales are very different):
pin <- par("pin")
rescaleX <- pin[1]/max(lastPP$xx)
xx <- rescaleX * lastPP$xx
rescaleY <- pin[2]/max(lastPP$yy)
yy <- rescaleY * lastPP$yy
xy$x <- rescaleX * xy$x
xy$y <- rescaleY * xy$y
## end of rescaling
d <- (xy$x - xx)^2 + (xy$y - yy)^2 # no need to sqrt()
NODE <- which.min(d)
res <- list()
if (NODE <= lastPP$Ntip) {
res$tips <- if (labels) x$tip.label[NODE] else NODE
return(res)
}
if (tips) {
TIPS <- prop.part(x)[[NODE - lastPP$Ntip]]
res$tips <- if (labels) x$tip.label[TIPS] else TIPS
}
if (nodes) {
if (is.null(x$node.label)) labels <- FALSE
res$nodes <- if (labels) x$node.label[NODE - lastPP$Ntip] else NODE
}
res
}
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