Resolved; I hadn't taken into account the fact that I needed to scale my trees by the clock rate.
On Thu, Feb 16, 2017 at 4:32 PM, William Gearty <wgea...@stanford.edu> wrote: > Hi all, > > I've recently finished a tip-dating analysis (see > https://www.mail-archive.com/r-sig-phylo@r-project.org/msg04659.html) and > I'm now trying to import the trees from the posterior (input.nex.run1.t, > etc.) into R for some comparative analyses. > > Using read.nexus, I was able to successfully import the trees, but for > some reason the branch lengths seem to be off. > The branch lengths for the consensus tree (from sumt) appear to import > into R fine (with the root at about 210 Ma), but the posterior trees seem > to have root ages ranging from 43 to 147. > > Am I missing something in my MrBayes nexus file/analysis, which is causing > the branch lengths to be off in the output file (I was under the impression > branch lengths are by default printed with the trees)? > Or is there a different (better) way to import them into R? > > Thanks in advance, > Will > > -- > William Gearty > PhD Candidate, Paleobiology > Department of Geological Sciences > Stanford School of Earth, Energy & Environmental Sciences > people.stanford.edu/wgearty > -- William Gearty PhD Candidate, Paleobiology Department of Geological Sciences Stanford School of Earth, Energy & Environmental Sciences people.stanford.edu/wgearty [[alternative HTML version deleted]] _______________________________________________ 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/
