Thank you Brian and Julien! Those packages do indeed make it easier to get at our question!
Cheers, Zach On Wed, Apr 4, 2018 at 5:57 PM, Julien Clavel <julien.cla...@hotmail.fr> wrote: > Hi Zach, > > > > In addition to SLOUCH (for a OU tracking a BM process) you can use mvMORPH > for fitting a model where a trait evolving under an OU process follow > another trait evolving under OU with some evolutionary lag (see p. 14-15 of > the package vignette “How to use mvMORPH”). > > > > Best wishes, > > > > Julien > > ------------------------------ > *De :* R-sig-phylo <r-sig-phylo-boun...@r-project.org> de la part de > Brian O'Meara <omeara.br...@gmail.com> > *Envoyé :* mercredi 4 avril 2018 22:39 > *À :* Zach Culumber > *Cc :* mailman, r-sig-phylo > *Objet :* Re: [R-sig-phylo] quantitative state dependent diversification > of another quantitative trait > > I think you want SLOUCH: Hansen et al. 2008: > https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1558-5646.2008.00412.x. > One trait evolves under Brownian motion, another trait follows it. > > Best, > Brian > > _______________________________________________________________________ > Brian O'Meara, http://www.brianomeara.info, especially Calendar > <http://brianomeara.info/calendars/omeara/>, CV > <http://brianomeara.info/cv/>, and Feedback > <http://brianomeara.info/teaching/feedback/> > > Associate Professor, Dept. of Ecology & Evolutionary Biology, UT Knoxville > Associate Head, Dept. of Ecology & Evolutionary Biology, UT Knoxville > Associate Director for Postdoctoral Activities, National Institute for > Mathematical & Biological Synthesis <http://www.nimbios.org> (NIMBioS) > > > > On Wed, Apr 4, 2018 at 2:43 PM, Zach Culumber <zculum...@gmail.com> wrote: > > > Hi everyone, > > > > We are interested in examining whether shifts in one continuous trait > have > > preceded shifts in another continuous trait through evolutionary time > for a > > phylogeny of ~80 species. To do this we were thinking of calculating the > > change in the value of each trait for each tip to its most recent > ancestor > > (i.e., node) and then for each node to its most recent ancestral node. > We > > have all the tip values and conducted ASR to get the node values. > However, > > we are unaware of any functions or packages that would automate > calculation > > of all these distances for teach tip and node to its most recent > ancestor. > > Does anyone have any suggestions of functions or packages that might > > possibly do this? Alternatively, are there better existing options for > > exploring this question? I.e., something similar to QuaSSE but for > analysis > > between two quantitative traits rather than traits and species > > diversification? Something like Bayes Traits or PGLS would allow tests > of > > correlated evolution, but not the order of evolutionary shifts. > > > > Thank you for any insights! > > > > Zach > > > > [[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-ph...@r-project.org/ > > > > [[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-ph...@r-project.org/ > -- Zachary W. Culumber Postdoctoral Research Associate Florida State University Department of Biological Science http://www.zwcresearch.com [[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/
