[R-sig-phylo] Ancestral State Reconstruction Using Internal Node Data

Hi All, I am trying to do ancestral state reconstruction in R using the packages {ape} and {phytools}, but these two packages do not seem to handle reconstruction to include data at internal nodes. I am able to do a reconstruction (on a sample tree, attached) using a tree with 6 terminal tips

Re: [R-sig-phylo] Phylogenetic PCA

Thank you all for your suggestions. I'll check them all. Thank you once again. Cheers, Sérgio. 2015-06-04 11:35 GMT+01:00 Thomas Püschel : > Hi Sergio, > > > there you go http://blog.phytools.org/2011/04/new-function-phylpca.html > http://cran.r-project.org/web/packages/phytools/index.html > > b

Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R

Hi Anand, After saving your Newick string in the file 'Anand.tre', I did: > source("https://raw.githubusercontent.com/emmanuelparadis/checkValidPhylo/master/checkValidPhylo.R";) > tr <- read.tree("Anand.tre") > checkValidPhylo(tr) Starting checking the validity of tr... Found number of tips: n