Try:
class(y)<-"multiPhylo"
for list y. Does that work?
- Liam
Liam J. Revell
University of Massachusetts Boston
web: http://www.bio.umb.edu/facstaff/faculty_Revell.html
email: liam.rev...@umb.edu
blog: http://phytools.blogspot.com
-Original Message-
From: David Bapst
Sent: Monday, J
Hello David,
Simply:
class(y) <- "multiPhylo"
Best,
Emmanuel
-Original Message-
From: David Bapst
Sender: r-sig-phylo-boun...@r-project.org
Date: Mon, 18 Jul 2011 19:02:17
To: R Sig Phylo Listserv
Subject: [R-sig-phylo] Converting a List of Trees into a multiPhylo Object
Hello all,
I
Hello all,
I have a lapply() function which is outputting phylo objects (the input is a
list of complicated tables, each of which corresponds to a resulting tree,
long story).
The following is NOT what I'm doing, but gives you an idea of what the
result from lapply() looks like.
require(ape)
x<-l
Hello all,
I just wanted to send a last reminder to the readers of this list about a
particular conference session at this year's Geological Society of America
2011. This conference will be held in Minneapolis, from October 9th to the
12th. This session, proposed by Emily King and I, will focus on
require(ape)
tree <- rtree(10)
dist.nodes(tree)
dist.nodes gives you pairwise distances between all nodes and tips, then you
can just pick out the one you want from the output matrix
HTH, Scott
On Monday, July 18, 2011 at 5:26 AM, Liutauras Rusaitis wrote:
> Hello,
>
> We're using the Ape l
Hi Eugen,
maybe this is because you don't say how to measure "co-occurence".
An idea with the data from picante:
library(picante)
data(phylocom)
phy <- phylocom$phylo
comm <- phylocom$sample
# a kind of phylogenetic distance between species (all species of the tree)
phd <- cophenetic(phy)
Hello,
We're using the Ape library here in a plant shape research, and we need to find
evolutionary time between two specific nodes on the evolutionary tree (by
adding the branch lengths along from one node to another). I'd appreciate if
anyone could hint the quickest way to do it.
Thanks,
L
HI@all,
guess I made something wrong, cause my question didn't show up. Anyway,
I was looking for a way to plot co-occurrence vs. phylogenetic distance
in R. I'm working with picante but there seems to be no such function in
the package. Anyone an idea?
greets
Eugen
--
Eugen Egorov
PhD Student
