Hi,

I have a problem with doing a repeated measures ANOVA. I will first give
you an idea of what my dataset looks like. We have 20 ponds, and for each
pond we took some individuals (waterfleas), say 10 and tested them along
two treatments (A and B). Now, for each pond we also know the fish
background (Fish versus No Fish) and Land use intensity (High versus Low).

Now, we measure the offspring of the first clutch and second clutch of each
individual, and we want to see if there is an effect of each of the other
factors (treatment, background, land use), so we need to do a repeated
measurement.

So I rearranged my data where I put the first and second clutch in one
column, something like this:

Ponds        Treatment     Background            LandUse          Clutch
          SizeClutch
Pond1         A                    Fish                      High
      1                        10
Pond1         B                    Fish                      High
      1                         15
Pond2         A                    NoFish                  High
    1                         8
Pond2         B                    NoFish                  High
    1                         11
etc
Pond20        B                   Fish                      Low
     1                          12
Pond1         A                    Fish                      High
      2                          15
Pond1         B                    Fish                      High
      2                           17
Pond2         A                    NoFish                  High
    2                          16
Pond2         B                    NoFish                  High
    2                           18
etc
Pond20       B                    Fish                      Low
     2                            11

So I made the Clutch variable myself, to separate between the different
clutches.

I then performered the following analysis

summary(aov(SizeClutch ~ Treatment*Background*LandUse +
Error(Clutch/Treatment*Background*LandUse) + Ponds , random = ~ Ponds|
Background*LandUse/Ponds))

This gives me something, but not exactly what I thought I would get.
I want to have results for
Ponds
LandUse
Background
Treatment
LandUse*Background
LandUse*Treatment
LandUse*Background*Treatment

Clutch
Clutch*Ponds
Clutch*LandUse
Clutch*Background
Clutch*Treatment
Clutch*LandUse*Background
Clutch*LandUse*Treatment
Clutch*LandUse*Background*Treatment

and p values for all of the effects.
Now, I don't know if it is possible to come to these results and if I'm
doing the repeated measure ANOVA correctly. Also, are there other ways to
do a repeated measurements in R?

Thanks in advance.
Lynn

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