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plotting CCA results in vegan

On Wed, 2010-03-10 at 17:33 +0000, L Quinn wrote:
Functions like 'ordipointlabel' and 'orditkplot' really cannot handle
biplot arrows -- contributions to improve the code are welcome, and they
will be credited to the authors when incorporated in vegan.

The only thing that you can do here is something like this:

ordipointlabel(cca.inv,display="species")
text(cca.inv, dis = "bp")

This adds biplot arrows to the jittered plot of species that
ordipointlabel() made. If you are lucky, the arrow labels won't
overwrite species names. You can adjust arrow scaling by setting
argument arrow.mul to a suitable value (the default is to find the value
of arrow.mul so that the arrows nicely fill the figure frame):

text(cca.inv, dis = "bp", arrow.mul = 0.9)

HTH,

Jari Oksanen