Hi,
my first question is about "adonis" function. Is it proper to use non-parametric multivariate by this function for a data-frame, not for a data matrix?
My response variable is simply a column of species number for different plots. Now I am looking for a correct way to analysis the its variance by a multivariate explanatory data.

The second question is about variation partitioning and rda with another data set. 
Applying "varpart" for variation partitioning, I would like to have a 
biplot for [a] or 
[c] fractions. I have done partial canonical analysis for these 
fractions, and I got the 
site scores and species scores, but testing the significance of rda axes by "anova" 
was not possible for these fractions as I had "Condition" in my formula. Note that (as I know) testing the significance of axes by anova.cca is only possible 
for models fitted only using formula. There are several examples in different vegan's manuals but in these examples there is only one explanatory matrix, however, I have two explanatory matrices: space and environment.  environment = temp + rain + hum, space = var1, var2, var3
Below you find what I have written and what I have got:

r1<-rda(decostand(com, "hell"),environment,space)
anova(r1,by="axis",alpha=0.05,perm=2000)
Error in anova.ccabyaxis(object, alpha = alpha, beta = beta, step = step,  : Analysis is only possible for models fitted using formula

Writing the model as formula, I got another error message:
   
r1<-rda(decostand(com, "hell")~rain+temp+hum,environment,space)
Error in scale.default(X, center = TRUE, scale = scale) : length of 'scale' must equal the number of columns of 'x'


Thank you very much in advance,

Omid

 Omid Paknia,
Institute of Experimental Ecology,
Albert-Einstein-Allee 11 
University of Ulm
D-89069 Ulm, 
Germany



      
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