ModelSelectionResultAccessors {kebabs} | R Documentation

## ModelSelectionResult Accessors

### Description

ModelSelectionResult Accessors

### Usage

    ## S4 method for signature 'ModelSelectionResult'
    gridRows(object)

### Arguments

`object` | a model selection result object (can be extracted from KeBABS model with accessor `modelSelResult`)

### Value

`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`

### Accessor-like methods

  `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.

### Author(s)

Johannes Palme <kebabs@bioinf.jku.at>

### References

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.

### Examples

    ## 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)

[Package kebabs version 1.20.0 Index]