Hi Colleen,

Using capscale you can use the function plot.cca (use ?plot.cca to see all options) to make plots.
If you use this:

plot ( yourcapscaleresult, display=c("wa","bp"))

 you get the site scores (wa) and the constraining variables arrows (bp) biplot , but if you want the triplot, species scores are in a bigger scale and your sites collapse in the middle, so I would try to make the 2 biplots, 

plot ( yourcapscaleresult, display=c("wa","bp"))
plot ( yourcapscaleresult, display=c("sp","bp"))

hope this helps,

Andrés

ckellogg <ctekellogg@gmail.com> escribió:

> Hi,
> I used capscale to examine relationships between relative species abundances
> at different sites with environmental variables.  When I attempt to plot the
> results using ordiplot all of my site points are squished to the center of
> the biplot.  I have tried changing the scaling and that only makes things
> worse.  Is there anyway I can get the sites to spread out a bit in the
> ordination?
>
> Thanks so much!
>
> Colleen
>
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-- 
Andrés Mellado Díaz

Centre for Hydrological Studies CEH-CEDEX
Water Quality Department
Pº bajo de la Virgen del Puerto, 3
28005, Madrid
SPAIN
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