[R-sig-eco] About additive partitioning - adipart

[Peter Solymos]

Thiago,

Additive diversity partitions are calculated as difference between
expected diversities at subsequent levels of a given sampling
hierarchy. If levels are not nested, it is not clear how to partition
these terms. You need either 1) to come up with a defendable method of
how to additively partition diversity among crossed hierarchies, or 2)
compare diversity partitions among plant species (e.g. using it as
highest level of the hierarchy, and define all subsequent levels as
the interaction between plant species and geographically nested
levels).

Cheers,

Peter

--
Péter Sólymos, Dept Biol Sci, Univ Alberta, T6G 2E9, Canada AB
solymos at ualberta.ca, Ph 780.492.8534, http://psolymos.github.com
Alberta Biodiversity Monitoring Institute, http://www.abmi.ca
Boreal Avian Modelling Project, http://www.borealbirds.ca


On Mon, Oct 29, 2012 at 10:41 AM, Thiago Gonçalves-Souza
<tgoncalves.souza at gmail.com> wrote:
> Dear all,
>
> I'm interested in analyze alpha and beta diversity components in an
> hierarchical way using adipart function. However, my design isn't nested. I
> collected spiders on five plant species (5 different "architecture"),
> plants on different patches , patches on 12 different sites. I sampled 100
> individual plants within each locality, 20 individuals from each of the
> five plant species. In addition, I sampled 20 patches within each locality.
> So, my table is similar with this one:
>
>    plant architecture patch site  1 1 1 1  2 1 1 1  3 1 1 1  4 1 2 1  5 2 2
> 1  6 2 3 1  7 2 3 1  8 2 4 1  9 3 4 1  10 3 5 1  11 3 6 1  12 3 6 1  ... ...
> ... 2  ... ... ... 2  ... ... ... 2
>
> I've run the adipart function and the following warning message appear:
>
>
> Warning message:
> In adipart.formula(species ~ ., hierar, index = "richness", nsimul = 1000) :
>   levels are not perfectly nested
>
> Is there any problem with Additive Diversity Partitioning method when the
> design isn't nested?
>
> Thank you all in advance,
> Thiago.
>
> --
> Thiago Gonçalves-Souza, Ms.
> Universidade Estadual Paulista (UNESP)
> Departamento de Zoologia e Botânica
> Programa de Pós-Graduação em Biologia Animal (Doutorado)
> E-mail alternativo: thiagoaracno at gmail.com
> Home page:<http://www.wix.com/thiagocalvesouza/tg-s>
>
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>
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