: 3
Date: Tue, 24 Jul 2012 13:25:45 -0500
From: Andrew Barr wab...@gmail.com
To: r-sig-phylo@r-project.org
Subject: [R-sig-phylo] simulate traits evolution in correlated with
body mass
Message-ID:
CABo4eqvJVyTX69GZSjvX-gMT3yhuDc=fy7gf2jqupgpmwd0...@mail.gmail.com
Content-Type: text
Hello everyone,
I have a tree, with body mass data for the tip taxa. I am interested
in simulating the evolution of continuous traits by BM that are
correlated with body mass. I want to use the body mass tip data that I
have to inform the character simulation, so that my resulting
simulated tip
Hi Andrew.
For desired correlation r, size data x, and tree you could just do:
library(phytools)
y-r*x+sqrt(1-r^2)*fastBM(tree)
This should give you the correlation r on average and the y|x should be
Brownian. (If x is Brownian, then both y x y|x will be too.)
- Liam
Liam J. Revell,
Actually, modify my previous email. That only works for sig^2(x)=1.0. It
should be:
library(phytools)
y-r*x+sqrt(1-r^2)*fastBM(tree,sig2=mean(pic(x,tree)^2))
- Liam
Liam J. Revell, Assistant Professor of Biology
University of Massachusetts Boston
web: http://faculty.umb.edu/liam.revell/
Liam Revell wrote:
library(phytools)
y-r*x+sqrt(1-r^2)*fastBM(tree,sig2=mean(pic(x,tree)^2))
This should give you the correlation r on average and the y|x should be
Brownian. (If x is Brownian, then both y x y|x will be too.)
If y is evolving in response to x, and x is changing
