The site coordinates are in spp.mds$points and the species coordinates are in
spp.mds$species
I have used those to make bubble plots, scaling the size of points by species
abundance. I got the idea from PRIMER and extended it with R.
I use the R graphics though, I think they are very flexible.
On Tue, 2011-09-20 at 20:54 +, L Quinn wrote:
> Hi,
> I am running a simple NMDS as outlined by Jari Oksanen in vegantutor, e.g.
> spp.dist<-vegdist(spp)spp.mds<-metaMDS(spp,trace=FALSE)spp.mds
> I am able to plot the results (species nicely overlaying sites) using
> plot(spp.mds,display="spe
Hi Lauren,
site.scores<-scores(mds.result, display="sites")
species.scores<-scores(mds.result, display="species")
Note that your result from metaMDS function should be based on "raw data"
not on "distance matrices". If your input to metaMDS function is a distance
matrix you will not be able to re
Hi,
I am running a simple NMDS as outlined by Jari Oksanen in vegantutor, e.g.
spp.dist<-vegdist(spp)spp.mds<-metaMDS(spp,trace=FALSE)spp.mds
I am able to plot the results (species nicely overlaying sites) using
plot(spp.mds,display="species",type="t",family="sans",font=2,xlim=c(-0.4,0.4),ylim=c
