Dears,
I'm studying the structure of phylo object to work it in my functions. I'm
using read.newick to read tree with singletons. I do not know why the
number of node is not equal to length of node.labels. For instance:
I have this tree (the same annexed):
June 2017 at 16:13, Mario José Marques-Azevedo <mariojm...@gmail.com>
wrote:
> Dear Eliot,
>
> Thank you for your answer! My tree is ok, but to plot is needed to
> collapse singles, as you said.
>
> I use ape/phytools to manipulate my tree for date it after with ph
tted. See:
>
> plot(t1)
>
> Error in plot.phylo(t1) :
> there are single (non-splitting) nodes in your tree; you may need to use
> collapse.singles()
>
> On Thu, Jun 1, 2017 at 1:31 AM, Mario José Marques-Azevedo <
> mariojm...@gmail.com> wrote:
>
>> De
without
problem. Maybe some update that I did, but I'm not sure.
Thank you again!
Best regards,
Mario
Mario José Marques-Azevedo
Ph.D. Candidate in Ecology
Department of Plant Biology, Institute of Biology
University of Campinas
/drop.clade.label.r
I leaned a lot working on it!
p.s.: drop.tip function remove singletons in the last code. Maybe this
behaviour could be optional with a new argument
All the best,
Mario
Mario José Marques-Azevedo
Ph.D. Candidate
Hi, George,
Ape package do not read tree with singletons, yet. New version will read.
You can use readTree from phytools package for while.
Best regards,
Mario
On 5 Sep 2017 5:53 p.m., "George Vega Yon" wrote:
Hi,
When trying to read this tree with the ape::read.tree