Hi Michael.
This is essentially the method of Pagel (1994). Though often interpreted
as a test for correlated evolution of two binary characters, the model
that is actually being fit is one in which the rate of transition 0->1
(or vice versa) in character A is affected by the state of binary
character B; or, conversely, if the rate of transition 0->1 (or vice
versa) in character B is affected by the state of character A.
This is implemented in fitPagel of phytools and I believe that this &
other more sophisticated flavor are available as part of the package corHMM.
All the best, Liam
Liam J. Revell, Associate Professor of Biology
University of Massachusetts Boston
web: http://faculty.umb.edu/liam.revell/
email: liam.rev...@umb.edu
blog: http://blog.phytools.org
On 5/3/2016 8:00 PM, Michael Foisy wrote:
Hello,
Quick question. I'm interested in whether the presence/absence of character
'A' affects the rate of evolution in character 'B'. Is there a function that
will do this for two or more discrete characters?
I've seen ratebystate {phytools} for continuous data; but my data are all
binary!
Thank you!
, Michael Foisy
MSc. Student
University of Toronto
michael.fo...@mail.utoronto.ca
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