Hai Richard,


have a look at:

Borcard, Daniel, Francois Gillet, and Pierre Legendre. /Numerical 
Ecology with R (Use R)/. 1st Edition. Springer, 2011.

which is the little brother to Legendre's Numerical Ecology, applying 
these methods with R.


A very nice freely available book using R is:

Kindt, Roeland, and Richard Coe. /Tree Diversity Analysis: [a Manual and 
Software for Common Statistical Methods for Ecological and Biodiversity 
Studies]/.         Nairobi and Kenya: World Agrofirestry Centre, 2005. 
Available here: 
http://www.worldagroforestry.org/downloads/publications/PDFs/MN08242.PDF


HTH,

Eduard




On 12/06/2012 02:26 AM, Rich Shepard wrote:
>   I left academia and basic ecological research decades ago and now work
> with environmental data collected by companies in compliance with 
> regulatory
> permit requirements. I've bought and read (mostly) all the books I could
> find on ecological analyses using R (all but one of Alain Zuur's books,
> Legendre & Legendre's 2nd English edition, Mike McCarthy's Bayesian 
> methods
> book, and Ben Bolker's book) but cannot find any references to 
> 'communities'
> in the indices. I'd greatly appreciate pointers to sources appropriate 
> for
> environmental data (which is much sloppier than ecological research 
> data).
>
>   The last time I addressed community analyses was my post-doc research
> which I published in Freshwater Biology in 1984. Only within the past 
> year
> have my clients needed to address issues using benthic macroinvertebrate
> assemblages (and fish) in streams. And, since I work by myself, I've 
> no one
> with whom to share ideas and discuss approaches; perhaps there's a better
> forum than this mail list for this.
>
>   The available benthic data has little taxonomic consistency below the
> family level. I want to use functional feeding groups rather than taxa as
> the basis of comparison because those better reflect conditions in each
> stream (collections of biota are made only once per year), and I want to
> examine correlations and cause-and-effect relations between biotic
> assemblages and water chemistry. There are only a few fish collections,
> tool, in the available data.
>
>   All ideas are certainly welcome!
>
> TIA,
>
> Rich
>


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