[Bioc-devel] MCRestimate 1.2.6, stratify bug

[Markus Ruschhaupt]

Hi,


> I use  MCRestimate 1.2.6,
> but failed to set the parameter "stratify=TRUE", which call 
> balanced.folds to cut the samples into folds.
> 
> the samples I used are 28 in classed and 29 in another class.
> 
> It is as below:
> 
> res.cv <- MCRestimate(eset,
> +                  class.column="class",
> +                  variableSel.fun = "varSel.highest.t.stat",
> +                  classification.fun ="SVM.wrap",
> +                  poss.parameters=list(kernel="linear"),
> +                  cross.outer=10,
> +                  cross.repeat=2,
> +                  cross.inner=5,
> +                  stratify=TRUE)
> 12Error in sampleOfFolds[[sample]] : subscript out of bounds
>  >
> 
> 
> Anyone can give me a hint?

I tried to reproduce your error and created a random data set with 28 
samples in one group and 29 samples in the other group. But in my case 
everything worked fine. So first you might try to update all the 
packages you use (especially the pamr and the e1071 package).

Best
  Markus