I have done PCAIV and projected 3 graphics using Scatters-Labels for -.ivl1, -.ivco and .ivfa to plot sites, species and environmental variables respectively (as Stephane DRAY so gently and efficiently advised me to).
I have also computed the correlation (after PCA on environmental variables) between environmental variables and sites scores by the MatAlg>diagonal inner product module and plot the correlation with Scatter>correlation circle.
(Even after reading the related "fiche thématique") I still not really understand how can we interpretate the contradicting results where some environmental variables show opposite positions at the .ivfa plot and at the correlation circle...
After superposing the 3 graphs (not the correlation circle), sites and species are "correctly positioned" but some environmental variables are not !! - according to my ecological and field experience. However, the same environmental variables are just like I was expecting them at correlation circle plot (seen separatly and of course not superposed to the other plots)...
I would be really greatful if someone could please give me some advise on this subject and explain me which environmental varibles' plot should I use for ecological interpretation of the PCAVI results.
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