[R-sig-eco] rarefaction not working with the min species number

[Stephen Sefick]

Brian,

What would you suggest?  Is there any literature that you would suggest 
that I read?  The abundances are estimated from a subsample of the whole 
sample using a volumetric procedure (subsamples out of 1L until at least 
300 individuals are picked).  This results in fractions of individuals 
for some, but not all taxa at a site.
many thanks,

Stephen

On 04/25/2012 09:29 AM, Brian Inouye wrote:
> Although rounding to the nearest integer will make the code run 
> without an error, it seems like then you are making the implicit 
> assumption that every unit of abundance is an independent sample with 
> equal probability of occurrence, equivalent to independent 
> individuals.  While I can imagine that is justifiable for some 
> datasets, in other cases that would be a dubious assumption.
> -Brian
>
> On 4/25/2012 6:00 AM, r-sig-ecology-request at r-project.org wrote:
>> From: Stephen Sefick<sas0025 at auburn.edu>
>> To: Jari Oksanen<jari.oksanen at oulu.fi>
>> Cc: r-sig-ecology<r-sig-ecology at r-project.org>
>> Subject: Re: [R-sig-eco] rarefaction not working with the min species
>>     number
>> Message-ID:<4F96B0B9.1050302 at auburn.edu>
>> Content-Type: text/plain; charset=UTF-8; format=flowed
>>
>> Jari,
>>
>> Many thanks, that did the trick.  Here is a little bit of code that
>> took my non-integer data (abundance estimates), rounds, and turns the
>> numbers into a data.frame with all integers col classes.
>>
>> community_round2int<- function(L){
>
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-- 
Stephen Sefick
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