Hi Silvia.
Are you using outgroup rooting? If so, this should work with the following:
trees<-lapply(unclass(trees),root,outgroup="outgroupname")
class(trees)<-"multiPhylo"
You can also give lapply any of the other arguments in root, for instance:
trees<-lapply(unclass(trees),root,outgroup="outgroupname",resolve.root=TRUE)
Let us know if that does not work.
All the best, Liam
Liam J. Revell, Assistant Professor of Biology
University of Massachusetts Boston
web: http://faculty.umb.edu/liam.revell/
email: liam.rev...@umb.edu
blog: http://blog.phytools.org
On 8/6/2013 2:03 PM, SILVIA CALVO ARANDA wrote:
Hi!
I want to root several trees in the same file to then use it for character
reconstruction taking phylogenetic uncertainty into account.
root() from ape package requires an object of class 'Phylo' but i can only
import my dataset into 'multiPhylo'.
i need to apply the root function to each one of the trees included in the
nexus file. lapply() is probably useful to this aim but i'm not able to get the
correct script
Any idea will be good for me!
thanks in advance
Silvia
[[alternative HTML version deleted]]
_______________________________________________
R-sig-phylo mailing list - R-sig-phylo@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
_______________________________________________
R-sig-phylo mailing list - R-sig-phylo@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
