Alastair, Liam and list,
Just two general comments on the use of Strahler numbers here which may or
may not be useful. (As an aside, I think the idea [from Alastair] and
implementation [by Liam] are both quite clever.)
First, I think it is important to have some null model here. Even under a
cons
This should be coming in via EvolDir soon, but may be of interest to many
of the readers of this list. You can find out more about the project,
including looking at the R code, at http://www.brianomeara.info/phrapl .
Please forward to any good candidates, and let me know if you have any
questions (
I wrote:
Thus if we find (chimp, bonobo) to be the "cherry" we
remove them, leaving a tree such as
(macacque, (gibbon, (orang, gorilla)));
so now (orang, gorilla) is a cherry.
but should have written
...leaving a tree such as
((macacque, (gibbon, (orang, (gorilla, human;
so now (gor
Brian O'Meara wrote:
The problem is reconstructing overlap down the tree (it's possible
to do,
but whether it's possible to do well is another question). One
thing you
could do to avoid this is to use the *other* method from
Felsenstein's 1985
independent contrasts paper, taking pairs of s
