That's definitely helpful, Joseph, but I'll need to extend the tips to varying amounts.
Basically, I performed a tip-dating analysis using constraints based on the FADs of a bunch of fossils. However, now some of the analyses I want to perform require that the tips extend to the species' extinctions, so I need to extend them to the LADs (or farther, I suppose). How would I, given a vector of LAD ages for the tips, extend the tips to those ages? On Wed, Jul 26, 2017 at 8:50 AM, Joseph W. Brown <josep...@umich.edu> wrote: > If you want to just extend all tips by a constant amount you can do this: > > # extend terminal edges by arbitrary amount (here: 13) > idx <- which(phy$edge[,2] < (phy$Nnode + 1)); > phy$edge.length[idx] <- phy$edge.length[idx] + 13; > > HTH. > Joseph. > ________________________________________ > Joseph W. Brown > Post-doctoral Researcher, Smith Laboratory > University of Michigan > Department of Ecology & Evolutionary Biology > Room 2071, Kraus Natural Sciences Building > Ann Arbor MI 48109-1079 > josep...@umich.edu > > > > On 26 Jul, 2017, at 11:39, David Bapst <dwba...@gmail.com> wrote: > > Not sure what you mean by extending tips, Will. Could you describe a > small example? > -Dave > > On Fri, Jul 21, 2017 at 5:15 PM, William Gearty <wgea...@stanford.edu> > wrote: > > Hi all, > > Before I go ahead and wrote a whole script, I was wondering if there is a > function or script out there for extending tips (or setting the ages of > tips) given a list of taxa and ages? > I haven't found anything, but perhaps I'm searching the wrong phrase(s). > > Thanks, > Will > > -- > William Gearty > PhD Candidate, Paleobiology > Department of Geological Sciences > Stanford School of Earth, Energy & Environmental Sciences > williamgearty.com > > [[alternative HTML version deleted]] > > _______________________________________________ > R-sig-phylo mailing list - Remail@example.com > https://stat.ethz.ch/mailman/listinfo/r-sig-phylo > Searchable archive at http://www.mail-archive.com/r- > sig-ph...@r-project.org/ > > > > > -- > David W. Bapst, PhD > https://github.com/dwbapst/paleotree > > _______________________________________________ > R-sig-phylo mailing list - Rfirstname.lastname@example.org > https://stat.ethz.ch/mailman/listinfo/r-sig-phylo > Searchable archive at http://www.mail-archive.com/r- > sig-ph...@r-project.org/ > > > -- William Gearty PhD Candidate, Paleobiology Department of Geological Sciences Stanford School of Earth, Energy & Environmental Sciences williamgearty.com [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - Remail@example.com https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://firstname.lastname@example.org/