[R] Please help me!!!! Error in `[.data.frame`(x, , retained, drop = FALSE) : undefined columns selected

[Max Kuhn]

Your data set has 217 predictors and 166 samples. If you read the
vignette on feature selection for this package, you'll see that the
default ranking mechanism that it uses for linear models requires a
linear model fit. The note that:

   >  prediction from a rank-deficient fit may be misleading

should tell you something. If it doesn't: the model fit is over
determined and there is no unique solution, so many of the parameter
estimates are NA.

Either create a modified version of lmFuncs that suits your needs or
remove variables prior to modeling (or try some other method that
doesn't require more samples than predictors, such as the lasso or
elasticnet).

Max

On Fri, Jan 1, 2010 at 10:14 PM, bbslover <dluthm at yeah.net> wrote:
>
> I am learning the package "caret", after I do the "rfe" function, I get the
> error ,as follows:
>
> Error in `[.data.frame`(x, , retained, drop = FALSE) :
>  undefined columns selected
> In addition: Warning message:
> In predict.lm(object, x) :
>  prediction from a rank-deficient fit may be misleading
>
>
> I try to that manual example, that is good, my data is wrong. I do not know
> what reanson?
>
> my code is :
>
>  subsets<-c(1:5,10,15,20,25)
>  ctrl<-rfeControl(functions=lmFuncs, method  = "cv",
>            verbose=FALSE,returnResamp="final")
>  lmProfile<-rfe(trainDescr,trainY,sizes=subsets,rfeControl=ctrl)
>
> before it, I have do some pre-process and my data is in the attachment.
>
> Please help me.  thank you!
>
> kevin http://n4.nabble.com/file/n996068/trainDescr.txt trainDescr.txt
> http://n4.nabble.com/file/n996068/trainY.txt trainY.txt
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-- 

Max