Hi,
On Aug 4, 2009, at 1:03 PM, ram basnet wrote:
Dear R users,
I am new user for elastic net. I am trying to use elasticnet library.
I have marker data with 359 markers and 168 samples, and response is
metabolites. I am trying to do regression between a metabolite and
markers.
But i am getting the following error:
en<-
enet
(marker,as.numeric(vio),lambda=0.5,normalize=FALSE,intercept=TRUE)
Error in one %*% x : requires numeric matrix/vector arguments
Then, I convert marker into numeric by using the following command.
And, here also getting error.
as.numeric(marker)
Error: (list) object cannot be coerced to type 'double'
is.numeric(marker)
[1] FALSE
Alternatively, I converted marker into numeric by using data.frame
command, it seems markers are now converted into numeric.
is.factor(datafram01[,1])
[1] FALSE
is.numeric(datafram01[,1])
[1] TRUE
But when i did again elastic net, i got the same error:
en<-
enet
(datafram01
,as.numeric(vio),lambda=0.5,normalize=FALSE,intercept=TRUE)
Error in one %*% x : requires numeric matrix/vector arguments
Does someone have ideas to overcome these problem?
If it is, it will be great help for me.
My guess is that your "marker" variable needs to be a matrix, not a
list, and not a data.frame.
The rows of the matrix will correspond to the individual observations
and the columns are the features/predictors of each observation -- so
in your case, it will be a matrix with 168 rows and 359 columns.
Try that and see if it works.
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact
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