| Hi, Im plotting a cophylogeny using cophyloplot {ape}. Im running; cophyloplot(bugs_tree,sponge_tree, assoc = con, type="cladogram", space=200, gap=0,show.tip.label=F, use.edge.length=F) where bugs_tree and sponge_tree are the two phylogenies and con is the association between the tips of the phylogenies and where the ordering of the columns correspond to bugs_tree, sponge_tree. Plotting with show.tip.label=F gives a nice plot like the one below, but using show.tip.label=T, gives strange horizontal lines (as seen below) which I think corresponds to the amount of tips in both phylogenies. However, I don't want these but I have no clue why they appear, since I have not manage to reproduce this in any example data. Any pointer would be appreciated, thanks! //Johannes |
tree2.pdf
Description: Adobe PDF document
tree1.pdf
Description: Adobe PDF document
--- Johannes Björk ___________________________________________ PhD-student Ecological Networks & Global Change Research Group [web: http://www.econetgc.net/] Department of Marine Biology and Oceanography Institute of Marine Sciences (ICM-CSIC) Passeig Marítim de la Barceloneta, 37-49 E-08003 Barcelona, Spain Office: 39 P Phone: +34 93 230 9500 (ext. 5886) Fax: +34 93 230 95 55 |
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