Thanks Ed.

I checked the website but found a small problem.

I ran the code below but an error jumped up.
Please kindly advise what 'priSite' is here.
Thank you.

Elaine

Error in orditorp(island.NMDS, display = "sites", priority = priSite,  :
  object 'priSite' not found

priSite <- diversity(dune, index = "invsimpson", MARGIN = 1)

plot(ord, type = "n", scaling = 3)

orditorp(ord, display = "sites", priority = priSite, scaling = scl,
+           col = "blue", cex = 1, pch = 19)


On Fri, Aug 2, 2013 at 3:04 PM, Eduard Szöcs <szoe8822@uni-landau.de> wrote:

> Hai Elaine,
>
> You can add the sites and species separately to your plot.
>
>
> So first create an empty plot:
>
> require(vegan)
> data(dune)
> mds <- metaMDS(dune)
> plot(mds, type = 'n')
>
>
>
> And then add the information you want (points, text, etc...):
>
> # species as symbols
> points(mds, display = 'species', pch = '+', cex = 0.6)
>
> # sites as text
> text(mds, display = 'sites')
>
>
> See also Gavin Simpsons series on ordination plots:
> http://www.**fromthebottomoftheheap.net/**2013/01/12/decluttering-**
> ordination-plots-in-vegan-**part-1-ordilabel/<http://www.fromthebottomoftheheap.net/2013/01/12/decluttering-ordination-plots-in-vegan-part-1-ordilabel/>
>
>
> Cheers,
>
> Eduard
>
>
>
> On 08/02/2013 08:46 AM, Elaine Kuo wrote:
>
>> Hello,
>>
>> I am running NMDS using metaMDS, based on a matrix.
>> The matrix has rows as islands and columns as species ID.
>>
>> I generated a plot of the result of metaMDS using type="t".
>> However, the island names are mostly covered by species ID and thus become
>> unclear.
>>
>> Please kindly advise any method to show island names (row names) only
>> for the plot of metaMDS.
>>
>> Thank you
>>
>> Elaine
>>
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>>
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>>
>>
>
> --
> Eduard Szöcs
> Quantitative Landscape Ecology
> Institute for Environmental Sciences
> University Koblenz-Landau
> Fortstrasse 7
> 76829 Landau
> Germany
> http://www.uni-koblenz-landau.**de/landau/fb7/**umweltwissenschaften/**
> landscape-ecology/Staff/**eduardszoecs<http://www.uni-koblenz-landau.de/landau/fb7/umweltwissenschaften/landscape-ecology/Staff/eduardszoecs>
>
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