[R] no slot of name "fixef" for this object of class "lmerMod"

[Iker Vaquero Alba]

   Dear Thierry,
   Thank you very much. Do you mean I should add a line to the function with the code "fixef(my.model)", retaining everything else, even the "beta0    <- as.numeric(mod at fixef)" line? Or should I replace something?   Also, when you say "fixef(my.model), do you mean "fixef(mod)" (as in my case "mod <- lmer(y ~ 1 + (1|group1)+(1|group2),verbose=FALSE)"?
   Thank you very much again.   Iker
 __________________________________________________________________

   Dr. Iker Vaquero-Alba
    Daphne du Maurier
    Centre for Ecology and Conservation
    College of Life and Environmental Sciences
    University of Exeter, Cornwall Campus
    TR10 9FE 
    Penryn
    U.K.

    http://biosciences.exeter.ac.uk/cec/staff/postgradresearch/ikervaquero-alba/

    https://eric.exeter.ac.uk/repository/handle/10036/3381


      De: Thierry Onkelinx <thierry.onkelinx at inbo.be>
 Para: Iker Vaquero Alba <karraspito at yahoo.es> 
CC: r-help at r-project.org 
 Enviado: Viernes 3 de julio de 2015 11:00
 Asunto: Re: [R] no slot of name "fixef" for this object of class "lmerMod"
   
Dear Iker,The internals of the mer model have changed. Use fixef(your.model). Best regards,​
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest 
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance 
Kliniekstraat 25
1070 Anderlecht
BelgiumTo call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher
The plural of anecdote is not data. ~ Roger Brinner 
The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John TukeyOp 2 jul. 2015 22:17 schreef "Iker Vaquero Alba" <karraspito at yahoo.es>:



   Hello everyone.
   I am trying to re-analyse some data with an R function I last used in 2011. Everything seemed to work fine then, but now, using the same code, it gives me this error:
   Error in R.pe(y, group1, group2, returnR = FALSE) :
  no slot of name "fixef" for this object of class "lmerMod"
   This is the part of the function that I think is relevant for the problem:
   # preparation
    #n <- rowSums(y)
    N <- length(y)
    k <- length(unique(group1)) # clone
    g <- length(unique(group2)) # round
    #
    require(lme4)
    # functions
    R.pe <- function(y, group1, group2, returnR=TRUE) {
     mod <- lmer(y ~ 1 + (1|group1)+(1|group2),verbose=FALSE)
        VarComp  <- lme4::VarCorr(mod)
        beta0    <- as.numeric(mod at fixef)
        var.e <- attr(VarComp, "sc")^2 # residual variance
        var.a1 <- (as.numeric(VarComp[1])) # e.g. get clone R
        var.a2 <- (as.numeric(VarComp[2])) # e.g. get round R
            R.group1  <- var.a1/(var.a1+var.e) # clone level
                  R.group2  <- var.a2/(var.a2+var.e)
                  R.groupr  <- var.a1/(var.a1+var.e+var.a2)
        if(returnR) return(list(R.group1=R.group1,R.group2=R.group2,R.groupr=R.groupr))
        else return(list(beta0=beta0, var.e=var.e, var.a1=var.a1, var.a2=var.a2))
    }


   I would appreciate any help about this. Let me know if you need more code, the function is obviously longer.
   Thank you very much in advance.
   Iker
__________________________________________________________________

   Dr. Iker Vaquero-Alba
    Daphne du Maurier
    Centre for Ecology and Conservation
    College of Life and Environmental Sciences
    University of Exeter, Cornwall Campus
    TR10 9FE
    Penryn
    U.K.

    http://biosciences.exeter.ac.uk/cec/staff/postgradresearch/ikervaquero-alba/

    https://eric.exeter.ac.uk/repository/handle/10036/3381


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