Method | Type | Number of genes p* | Function | Fixed parameters | Parameters tuned via CV |
---|---|---|---|---|---|
KNN | 1 | 20, 50, 100, 200, 500 | knnCMA | k = 1, 3, 5 | Â |
LDA | 2 | 10, 20 | ldaCMA | Â | Â |
FDA | 2 | 10, 20 | fdaCMA | Â | Â |
DLDA | 3 | 20, 50, 100, 200, 500 | dldaCMA | Â | Â |
PLSLDA | 3 | 20, 50, 100, 200, 500 | plsldaCMA | ncomp = 2, 3 | Â |
NNET | 3 | 20, 50, 100, 200, 500 | nnetCMA | Â | Â |
RF | 4 | Â | rfCMA | mtry = ,, , | Â |
linear SVM | 4 | Â | svmCMA | Â | cost |
PAM | 4 | Â | pamCMA | Â | shrinkage parameter |
L 2 | 4 | Â | plrCMA | Â | penalty |