On Fri, 28 Jan 2011 17:20:57 -0600 Scott Chamberlain
wrote:
Dear R community,
I would like to simulate discrete characters on a randomly generated
tree. However, I would like to create different sets of trees and
associated characters at certain levels of phylogenetic signal.
If you know t
Hi Scott,
you may try the function simSeq in the phangorn package. You can
define a root sequence to start with:
dat = simSeq(tree, l=10, rootseq=rep(1, 10), type="USER", model="",
levels=c(0,1), rate=1, ancestral=TRUE)
as.character(dat)
Cheers,
Klaus
On 1/29/11, Scott Chamberlain wrote:
> De
Hi David and list,
just a quick comment on one of your questions :
for quantitative traits on a phylogeny you can compare your "best" model to
the "white noise" model implemented in geiger, which assumes that your
traits are drawn from a normal distribution.
This last model would be the "baseline
Dear R community,
I would like to simulate discrete characters on a randomly generated tree.
However, I would like to create different sets of trees and associated
characters at certain levels of phylogenetic signal.
Can someone point me in the right direction?
I am familiar with sim.c
Hello all,
Apologies for leaving the replies to get cold for a week, but now I
finally have some time to respond.
On Thu, Jan 20, 2011 at 12:17 PM, Brian O'Meara wrote:
> I think considering model adequacy is something that would be useful to do
> and is not done much now. One general way to do
