R help - Jul 2013 - permanova for multivariate repeat measures toxicology data set

Hello,

I would like to use a permanova to analyze my repeated measures,
multivariate data set using the package vegan (adonis function). I
have several explanatory variables and many clinical
biochemistry/hematological response variables (all continuous,
non-normally distributed).


My explanatory variables are:

ID - 29 levels - individual subjects

Treatment - 2 levels

Sex - 2 levels

Time - 11 levels - subjects were treated 11 times


I am interested in (1) whether the response variable changes over time
with repeated exposure and (2) whether the 2 treatment groups are
significantly different from each other and whether this effect varies
with time.


I can run the adonis function from package vegan but am unsure how to
incorporate the repeated measures on the same subjects into the
analysis.


adonis(hemvar~ hemat$Treatment * hemat$Exposure * hemat$SEX *
hemat$ID, permutations=999, method="euclidean")


Any help would be greatly appreciated!

An example of one of my data sets....
> str(hemat)
'data.frame':	87 obs. of  14 variables:
 $ ID       : Factor w/ 29 levels "G-BB","G-BW",..: 1 1 1 2
2 2 3 3 3 4 ...
 $ Time     : Factor w/ 3 levels
"Tx4","Tx5","Tx6": 1 2 3 1 2 3 1 2 3 1 ...
 $ Treatment: Factor w/ 2 levels "Control","Experimental": 1
1 1 2 2 2
1 1 1 1 ...
 $ SEX      : Factor w/ 2 levels "Female","Male": 2 2 2 2 2
2 1 1 1 2 ...
 $ PCV      : int  45 33 38 50 49 53 45 37 39 36 ...
 $ WBC      : num  10.3 6.8 11.6 19.1 9.7 9.8 20 34.3 33.4 20.7 ...
 $ BASO     : num  0.206 0.068 0.464 0.382 0.388 ...

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