[R-sig-eco] Unifrac distance matrix with dbRDA in Vegan

[dougwyu]

Hi Jari,

Thanks.  That's what i thought, but i was confused by this:  "I changed metaMDS function in vegan so that it easily accepts unifrac distances"

I thought it was something to do with formatting or a special unifrac output file or something.

doug

On 23 Apr 2012, at 12:36, Jari Oksanen wrote:

> 
> On 23/04/2012, at 04:19 AM, dougwyu wrote:
> 
>>> 
>>> By the way, I changed metaMDS function in vegan so that it easily accepts unifrac distances a couple of years ago after I was in a workshop with Susan Letcher, and she suggested I do this.
>>> 
>>> Cheers, Jari Oksanen
>>> 
>> 
>> Would you please point us to any documentation for importing unifrac distance matrices into vegan?  (nothing specific about unifrac turns up in the vegan documentation)
>> 
>> I was about to do this and was under the impression that i could treat unifrac matrices like any other distance matrix.  
>> 
> Doug,
> 
> It is not about vegan but about R: vegan uses R dissimilarity/distance structures (that inherit from class "dist"). Once you got it into R it is in vegan, and there is nothing specific to vegan. 
> 
> Cheers, Jari Oksanen
> -- 
> Jari Oksanen, Dept Biology, Univ Oulu, 90014 Finland
> jari.oksanen at oulu.fi, Ph. +358 400 408593, http://cc.oulu.fi/~jarioksa
> 
> 
>