[R-sig-phylo] quantitative state dependent diversification of another quantitative trait (Zach Culumber)

[k***@wp.pl]

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

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 de la part de
Brian O'Meara
*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
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)

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
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--
Zachary W. Culumber
Postdoctoral Research Associate
Florida State University
Department of Biological Science
http://www.zwcresearch.com
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