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--
Nicholas Crouch
Graduate Student, Igić Lab
Department of Biological Sciences
University of Ill
/
email: liam.rev...@umb.edu
blog: http://blog.phytools.org
On 9/17/2014 10:46 PM, Nicholas Crouch wrote:
Hi,
I am having a problem with write.nexus.data, such that the file generated
is nonsense.
I have a very, very large data set, but have been working with a subset
trying to solve
;
DIMENSIONS NTAX=135165 NCHAR=1;
FORMAT DATATYPE=DNA MISSING=? GAP=- INTERLEAVE=YES;
MATRIX
1 040 etc.
I haven't been able to find other posts on this, any help is greatly
appreciated.
Sincerely,
Nick
--
Nicholas Crouch
Graduate Student, Igić Lab
Department
:
http://faculty.umb.edu/liam.**revell/http://faculty.umb.edu/liam.revell/
email: liam.rev...@umb.edu
blog: http://blog.phytools.org
On 8/13/2013 10:43 AM, Nicholas Crouch wrote:
Hi All,
For an analysis I am performing I am looking to drop all terminal branches
from a phylogeny (class phylo
Hi All,
The 'mrca' function in Ape provides a method for finding the common
ancestor of a pair of taxa. What I would like have not found is a function
where you can pass a (long) list of tips from a phylogeny and find the node
which represents the common ancestor to all these tips.
Does such a
Sam,
In order to run on one tree try phy=trees[[1]], otherwise you will need
to run a loop of the function over all the trees.
e.g.
for(i in 1:length(trees)){
phy - trees[[i]]
then code as normal
Nick
On Tue, Apr 30, 2013 at 7:33 AM, Samantha DelSerra s.delse...@gmail.comwrote:
Hello,
Hi,
Hoe does the function nodelabels match data to the phylogeny? Ancestral
reconstruction produces a vector with a sample output:
st
[,1] [,2][,3] [,4][,5]
[1,] 0.0001381085 0.007642601 0.01638118 0.001591162 0.001268793
[2,] 0.9998618915 0.992357399
