ModelSelectionResultAccessors {kebabs} | R Documentation |
ModelSelectionResult Accessors
## S4 method for signature 'ModelSelectionResult' gridRows(object)
object |
a model selection result object (can be extracted from
KeBABS model with accessor |
gridRows
: returns a list of kernel objects
gridColumns
: returns a DataFrame
object with grid column
parameters
gridErrors
: returns a matrix with grid errors
performance
: returns a list of matrices with performance values
selGridRow
: returns the selected kernel
selGridCol
: returns the selected SVM and/or hyperparameter(s)
fullModel
: returns a kebabs model of class
KBModel
gridRows
:
return the grid rows containing the kernels.
gridColumns
:
return the grid columns.
gridErrors
:
return the grid CV errors.
performance
:
return the collected performance parameters.
selGridRow
:
return the selected grid row.
selGridCol
:
return the selected grid column.
fullModel
:
return the full model.
Johannes Palme <kebabs@bioinf.jku.at>
http://www.bioinf.jku.at/software/kebabs
J. Palme, S. Hochreiter, and U. Bodenhofer (2015) KeBABS: an R package
for kernel-based analysis of biological sequences.
Bioinformatics, 31(15):2574-2576, 2015.
DOI: 10.1093/bioinformatics/btv176.
## create kernel object for normalized spectrum kernel specK5 <- spectrumKernel(k=5) ## Not run: ## load data data(TFBS) ## perform training - feature weights are computed by default model <- kbsvm(enhancerFB, yFB, specK5, pkg="LiblineaR", svm="C-svc", cost=c(1,15,50,100), cross=10, perfParameters="ALL", showProgress=TRUE) ## show model selection result mres <- modelSelResult(model) mres ## extract grid errors gridErrors(mres) ## extract other performance parameters performance(mres) ## End(Not run)