Dear Rosemary.
This appears to be a problem of older ape versions. If you update to the
latest version of ape (3-1.1) I believe that you will find this is fixed.
All the best, Liam
Liam J. Revell, Assistant Professor of Biology
University of Massachusetts Boston
web: http://faculty.umb.edu/liam.revell/
email: [email protected]
blog: http://blog.phytools.org
On 5/15/2014 7:11 PM, Rosemary McCloskey wrote:
Hello,
I'm running R version 3.0.2 on Ubuntu, and I have ape version 3.0-11
installed. When I try to color the edges of a "fan" type phylogeny plot,
only the parts of the edges that stick out get colored, not the parts
that go around the circle. Here is a MWE, adapted from the manual:
library(ape)
data(bird.orders)
X <- c("red", "orange", "yellow", "green", "blue", "purple")
pdf("test.pdf")
plot(bird.orders, "fan", edge.color=X)
dev.off()
The edges are colored fine when I plot it in any mode other than "fan".
Is this a Linux-specific thing, maybe? It's not just pdf's, I tried
png() instead of pdf() and the result was the same.
Thanks for your help!
Rosemary
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