[R-sig-eco] Rotations for PCoA?

[Sarah Goslee]

It isn't "just like a PCA" but you can use a permutation procedure to fit
the traits to a 2-dimensional ordination configuration using vf() in the
ecodist package.

Sarah

On Mon, Oct 19, 2009 at 7:44 AM, Jan Hanspach <jan.hanspach at ufz.de> wrote:
> Dear all,
> I have a bunch of plant species and their traits (life span, pollination
> type, strategy type, association to human disturbance... overall 5
> categorical and two interval scaled variables). I want to know how the
> traits are interrelated, e.g. are annual plants predominantly ruderals
> that grow in habitats strongly disturbed by humans.
>
> Therefore I calculated a Gower dissimilarity matrix on the species
> traits (species=rows, traits=columns; using daisy(), which seems to be
> appropriate for mixed variable types). With the dissimilartiy matrix I
> calculate a PCoA using cmdscale and that works fine (beside some
> negative Eigenvalues).
>
> Now, I want to know if  it is possible to get rotations for my traits,
> like it is calculated for a PCA? So that I can plot my traits within the
> ordinations space (or give the values in a table).
> Thanks!
> Jan
>

-- 
Sarah Goslee
http://www.functionaldiversity.org