Dear all,
I want to plot superimposed trees from a posterior distribution using the
densiTree function of the R package phangorn. I’m using the R vesion 3.1.3
(I understand that this package was written under that version). The
function works well when I use no more than 500 trees from the posterior
distribution, but once I reach that limit the function densiTree runs in
the R console (no error message pops up) but no plot is retrieved. I
believe my computer has no memory problems, since 1/3 of the C disc is
still empty.
trees<-read.nexus(file=file.choose())
consensus<-read.nexus(file=file.choose())
x<-sample(trees, 500)
densiTree(x, type = "cladogram", alpha = 1/length(x), consensus =
consensus, optim = FALSE,
scaleX = FALSE, col = 1, width = 1, cex = 0.8)
(THIS WORKS)
x<-sample(trees, 550)
densiTree(x, type = "cladogram", alpha = 1/length(x), consensus =
consensus, optim = FALSE,
scaleX = FALSE, col = 1, width = 1, cex = 0.8)
(THIS DOES NOT WORK!)
Thanks in advance for helping me with this!
Marina
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