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/

Reply via email to