Hello,
Do you know how well a MDS can summarize the data set by evaluating the eig
values?
eig values between what? what is the max value that translates a really good
MDS?
thanks
Barbara

On 23 July 2010 18:12, <syrovat@sci.muni.cz> wrote:

> Dear list members,
>
> I am creating an ordination diagram (now it is 'coca' but I would like to
> use it also with any other ordination methods - DCA, CCA - and possibly
> NMDS), where I want to show species in relation to main gradients (the
> ordination axes).
> The ordination is based on presence/absence (or abundance) of many species
> (130) and I want to show only few of them - the most important. I thing
> that showing the species best responding to the gradients (i.e. those,
> which probability of presence really change within the two-dimensional
> ordination space) would be a good practice.
>
> If I remember well, there was an option to display only species with
> specified fit in Canoco.
>
> Is there any way to calculate the species fit in R? I think the function
> 'envfit' from the 'vegan' package is somewhat different. Maybe should I
> use 'ordisurf'?
>
> Or would you suggest some different practice in selecting the species to
> display?
>
> I will be very grateful for any help.
>
> Best,
> Vit
>
> --
> Vit Syrovatka
> Department of Botany and Zoology,
> Masaryk University
> Kotlarska 2, 61137 Brno,
> Czech Republic
> email: syrovat@sci.muni.cz
>
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