Hi Roger,
Fast Solution: use pathd8 or r8s or treePL. Not in R... pathd8 should be the
easiest one since you just need a ultrametric tree... 1 sec in parthd8
Cheers, Franz
> On 21.09.2015, at 16:21, Fabian Roger wrote:
>
> hej everyone
>
> I have a large phylogeny based on 16S RNA OTU data
ng that has a “meaning together”...
>
>
> > The other question is about the results. I ran corDISC with all 5
> > different thresholds and the results are super different. Almost all of
> > them range between 10 and 100 (100 was the upper bound).
>
> So the general
HTH.
> JWB.
>
> Joseph W. Brown
> Post-doctoral Researcher, Smith Laboratory
> University of Michigan
> Department of Ecology & Evolutionary Biology
> Room 2071, Kraus Natural Sciences Building
> Ann Arbor MI 48109-1079
> jo
info
>
> Postdoc collaborators wanted: http://nimbios.org/postdocs/
> Calendar: http://www.brianomeara.info/calendars/omeara
>
> On Tue, Dec 30, 2014 at 4:18 AM, Franz Krah wrote:
>
> > Dear all,
> >
> > I used chronos to make a large phylogeny (~3600 speci
Dear all,
I used chronos to make a large phylogeny (~3600 species) ultrametric.
The tree is rooted and binary.
With the following code I get the error:
tree <- read.tree("full_Cipres_Data/RAxML_bestTree.tre")
tree <- chronos(tree, lambda = 1, model = "correlated", quiet = FALSE,
calibra
