Dear Zach, You can also have a look at mvSLOUCH (on CRAN). If you have only two traits it will be similar to SLOUCH and mvMORPH (maybe mvSLOUCH will have more detailed output). But mvSLOUCH will also allow you to model multiple correlated traits responding to (multiple correlated) BM traits.
Best wishes Krzysztof > On Wed, Apr 4, 2018 at 5:57 PM, Julien Clavel > 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 âHow to use mvMORPHâ). > > > > > > > > Best wishes, > > > > > > > > Julien > > > > ------------------------------ > > *De :* R-sig-phylo de la part de > > Brian O'Meara > > *EnvoyĂŠ :* mercredi 4 avril 2018 22:39 > > *Ă :* 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 > > , CV > > , and 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 (NIMBioS) > > > > > > > > On Wed, Apr 4, 2018 at 2:43 PM, Zach Culumber 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]] > > > > > ------------------------------ > > Subject: Digest Footer > > _______________________________________________ > R-sig-phylo mailing list > R-sig-phylo@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-phylo > > > ------------------------------ > > End of R-sig-phylo Digest, Vol 123, Issue 2 > ******************************************* _______________________________________________ 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/
