Hi Andrew,
Andrew Barr wrote on 24/05/2011 22:25:
Hi all,
I am trying to figure out how to specify the line type for a polytomy
using plot.phylo(). If I read in an example tree and plot it while
specifying a single value for the argument edge.lty, the function
automatically takes care of the polytomy "edge" (i.e. the vertical
line).
##plot using single value for lty
read.tree(text="(rat,mouse,(human,chimp));")->mytree
plot(mytree,edge.lty=4)
##
However, for my real data, I need to specify a vector of edge.lty
values, in order to code the edges based on character values. In this
case, I can't specify a line type for the polytomy, because it isn't
an edge!
Correct.
##plot using vector of same length as mytree$edge
plot(mytree,edge.lty=c(3,5,4,4,4))
#
Note that the vertical line for the polytomy defaults to a solid line
(lty=1). Any ideas how to change that?
Not for this type of tree, but why not use type = "c"? If your tree has
no branch lengths, the appearance as nice as the default type = "p".
Cheers,
Emmanuel
Thanks you,
Andrew Barr
University of Texas at Austin.
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--
Emmanuel Paradis
IRD, Jakarta, Indonesia
http://ape.mpl.ird.fr/
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