[R] Rooting trees using ape

[Simon Blomberg]

Please supply enough information to allow us to reproduce the error.
Also, nirK.tree is a different object to nirk.tree, which might be
confusing things.

Simon.

On Wed, 2007-10-10 at 15:07 +0200, Chris Jones wrote:
> Hi all,
> 
> I seem to be having a difficult time using the 'ape' package in R  
> when it comes to rooting trees.  Here's a short screenshot:
> 
>  > nirK.tree
> 
> Phylogenetic tree with 23 tips and 21 internal nodes.
> 
> Tip labels:
> 	Burkholder, Burkholde3, Burkholde1, Burkholde4, Burkholde5,  
> Ralstonia2, ...
> 	Node labels:
> 	, 100, 100, 100, 70, 91,...
> 
> Unooted; includes branch lengths.
>  > test<-root(nirk.tree, 4)
> Error in root(nirk.tree, 4) : subscript out of bounds
>  > test<-root(nirk.tree, "Burkholde4")
> Error in root(nirk.tree, "Burkholde4") : subscript out of bounds
>  >
> 
> I tried with the example tree provided in the package, and that  
> seemed to work ok.  Any suggestions?
> 
> Many thanks,
> Chris
> 
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-- 
Simon Blomberg, BSc (Hons), PhD, MAppStat. 
Lecturer and Consultant Statistician 
Faculty of Biological and Chemical Sciences 
The University of Queensland 
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Australia
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email: S.Blomberg1_at_uq.edu.au

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