Hi

I am using metaMDS in vegan to represent the dissimilarities between
different aspects of diversity associated with a set of species (abundance,
cover, frequency, importance value, contribution to functional diversity etc
- each a single number per species). The diversity measures are in rows and
the species in columns.

I get the plotting of the diversity measures ("sites" in the usual
terminology) on the plot. What I am battling to understand is, what does
plotting the species mean in this case? What are the wascores actually, if
the data in the table are not abundances but other values?

What, if anything, can one read into the shape of the cloud of "species"
(cols) points on an MDS plot of "sites" (rows)? I am getting interesting
shapes for the cloud of "species" points and I'm just not sure how to
interpret this.

I'd really appreciate some help. Somehow these multivariate methods always
end up making me feel thick!!

Thanks
Karen

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Karen Kotschy
Centre for Water in the Environment
University of the Witwatersrand, Johannesburg, South Africa

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