R help - Nov 2012 - Can't see what i did wrong..

with

pred.pca<-predict(splits[[i]]$pca,trainingData at samples)[,1:nPCs]
dframe<-as.data.frame(cbind(pred.pca,class=isExplosive(trainingData,2)));
results[[i]]$classifier<-ksvm(class~.,data=dframe,scaled=T,kernel="polydot",type="C-svc",
		C=C,kpar=list(degree=degree,scale=scale,offset=offset),prob.model=T)

and a degree of 5 i get an error of 0 reported by the ksvm object. But when
doing

pred.pca<-predict(splits[[i]]$pca,trainingData at samples)[,1:nPCs]
pred.svm<-kernlab::predict(results[[i]]$classifier,pred.pca,type="probabilities");
results[[i]]$trainResults$predicted<-pred.svm[,2]
		
the results vary widely from the class vector. Nearly all predictions are
somewhat around 0.29. Its just strange. And i have no idea where things go
wrong. They're in the same loop with i, so its probably not an indexing
issue.

Maybe kernlabs predict doesn't scale the data or something?

Its not scaling.. so.. 

I guess i'll stay severely frustrated, and yes i know this is probably not
enough information for anyone to help.
Still, talking helps ;)

On 15.11.2012, at 15:15, Jessica Streicher wrote:
> with
> 
> pred.pca<-predict(splits[[i]]$pca,trainingData at samples)[,1:nPCs]
>
dframe<-as.data.frame(cbind(pred.pca,class=isExplosive(trainingData,2)));
>
results[[i]]$classifier<-ksvm(class~.,data=dframe,scaled=T,kernel="polydot",type="C-svc",
> 		C=C,kpar=list(degree=degree,scale=scale,offset=offset),prob.model=T)
> 
> and a degree of 5 i get an error of 0 reported by the ksvm object. But when
doing
> 
> pred.pca<-predict(splits[[i]]$pca,trainingData at samples)[,1:nPCs]
>
pred.svm<-kernlab::predict(results[[i]]$classifier,pred.pca,type="probabilities");
> results[[i]]$trainResults$predicted<-pred.svm[,2]
> 		
> the results vary widely from the class vector. Nearly all predictions are
somewhat around 0.29. Its just strange. And i have no idea where things go
wrong. They're in the same loop with i, so its probably not an indexing
issue.
> 
> Maybe kernlabs predict doesn't scale the data or something? 
>