Hello all,
A recent discussion set my mind thinking on a particular issue and, once
again, I decided to ask for the general opinion of R-Sig-Phylo denizens. It
may be easier to start with an example.
Let's say that there exists a worker who is measuring several different
traits across a number of
Hi David.
In general it is inconsequential whether X or Y are biologically
inherited traits; but whether the residual error in Y given X is
correlated or independent among species. In the case of growth rate as
a function of habitat degradation this corresponds to:
Growth Rate = beta0 +
Hi,
I try to rotate a cophyloplot. Unfortunately, it crashes my R GUI
(2.13.2 and 2.14.0, Windows) as well as Eclipse 3.7.1 with StatET
2.0.1 on Windows and Eclipse 3.6.2 with StatET 2.0.1 on Fedora 15 and
the native R binary started from the shell. It seems like it is
depending on the tree size.
Liam wrote:
I'm not sure I entirely agree that we need to assume that the environmental
trait is evolving on the tree by Brownian motion. I believe that so long as
Y|X (in David's example, growth rate given habitat degradation) is evolving
by Brownian motion, we should be OK to use PIC
Hi,
does anyone know an R package or function which is able to
draw/optimize tanglegrams (two dendrograms sharing the same leafs [not
necessarily identical]) so that it minimizes crossing edges? The APE
package contains the function cophyloplot to draw tanglegrams but it
does not optimize the
