Hi all
I am using cophylo in phytools to draw a large tanglegram (phylogenies
with 29 and 129 terminals, and 129 associations between them). The
problem is that only a fraction of the edges of the larger tree (to the
right) are plotted.
This is the syntax used
obj <- cophylo(euglossini29, orchids, links, rotate.multi=TRUE)
#which apparently works well:
Rotating nodes to optimize matching...
Done.
plot.cophylo(obj, links.lwd=1, link.lty=2, fsize=0.4, pts=FALSE,
link.type="curved")
# the resulting plot can be visualized here:
https://www.uv.es/balbuena/PDF/Rplot.pdf
I usually work in RStudio but I got the same result in an ordinary R
console. In addition, when I use cophyloplot (ape) with the same input,
I am able to get the tanglegram.
I wonder what the problem might be and any help will by much appreciated.
Juan A. Balbuena
--
Dr. Juan A. Balbuena
Cavanilles Institute of Biodiversity and Evolutionary Biology
Symbiont Ecology and Evolution Lab
University of Valencia http://www.uv.es/~balbuena
<http://www.uv.es/%7Ebalbuena>
P.O. Box 22085 http://www.uv.es/cophylpaco
<http://www.uv.es/cavanilles/zoomarin/index.htm>
46071 Valencia, Spain
e-mail: j.a.balbu...@uv.es <mailto:j.a.balbu...@uv.es>tel. +34 963 543
658 fax +34 963 543 733
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
*NOTE!*For shipments by EXPRESS COURIER use the following street address:
C/ Catedrático José Beltrán 2, 46980 Paterna (Valencia), Spain.
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
_______________________________________________
R-sig-phylo mailing list - R-sig-phylo@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
