Hello Jarrod, try: h.d<-as.hclust(reorder(multi2di(host.tree))) as.dendrogram(h.d) Maybe it works.
Regards, Klaus On 7/25/11, Jarrod Hadfield <j.hadfi...@ed.ac.uk> wrote: > Dear list, > > I'm trying to convert a phylo object into a dendrogram object with > little success. host.tree is a rooted ultrametric tree with polytomies > stored as phylo object. The polytomies can be resolved to produce a > binary tree and this can be coerced into a hclust object: > > h.d<-as.hclust(multi2di(host.tree)) > > However when converted to a dendrogram using as.dendrogram(h.d) the > dendrogram appears broken. str(as.dendrogram(h.d)) returns: > > --[dendrogram w/ 2 branches and members at h = 96.1] > |--[dendrogram w/ 2 branches and members at h = 82.8] > | |--[dendrogram w/ 2 branches and members at h = 70.3] > | | |--[dendrogram w/ 2 branches and members at h = 39] > | | | |--[dendrogram w/ 2 branches and members at h = 24.5] > Error in class(val) <- cl : attempt to set an attribute on NULL > > I have given the zero branch lengths from the polytomies non-zero > branch lengths, but this does not seem to work either. > > Any help would be gratefully received. > > Jarrod Hadfield > > > -- > The University of Edinburgh is a charitable body, registered in > Scotland, with registration number SC005336. > > _______________________________________________ > R-sig-phylo mailing list > R-sig-phylo@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-phylo > -- Klaus Schliep Université Paris 6 (Pierre et Marie Curie) 9, Quai Saint-Bernard, 75005 Paris _______________________________________________ R-sig-phylo mailing list R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
