Package adams.data.instancesanalysis.pls

Class KernelPLS

  • All Implemented Interfaces:
    adams.core.Destroyable, adams.core.GlobalInfoSupporter, adams.core.logging.LoggingLevelHandler, adams.core.logging.LoggingSupporter, adams.core.option.OptionHandler, adams.core.SizeOfHandler, adams.core.TechnicalInformationHandler, Serializable, weka.core.CapabilitiesHandler, GenericPLSMatrixAccess
    public class KernelPLS
extends AbstractMultiClassPLS
    Kernel Partial Least Squares Regression in Reproducing Kernel Hilbert Space

    For more information see:
    Roman Rosipal, Leonard J. Trejo (2001). Kernel Partial Least Squares Regression in Reproducing Kernel Hilbert Space. Journal of Machine Learning Research. 2:97-123. URL http://www.jmlr.org/papers/volume2/rosipal01a/rosipal01a.pdf 

     @article{Rosipal2001,
    author = {Roman Rosipal and Leonard J. Trejo},
    journal = {Journal of Machine Learning Research},
    pages = {97-123},
    title = {Kernel Partial Least Squares Regression in Reproducing Kernel Hilbert Space},
    volume = {2},
    year = {2001},
    URL = {http://www.jmlr.org/papers/volume2/rosipal01a/rosipal01a.pdf}
 }
 


    -logging-level <OFF|SEVERE|WARNING|INFO|CONFIG|FINE|FINER|FINEST> (property: loggingLevel)
    The logging level for outputting errors and debugging output.
    default: WARNING
    min-user-mode: Expert
 
    -preprocessing-type <NONE|CENTER|STANDARDIZE> (property: preprocessingType)
    The type of preprocessing to perform.
    default: CENTER
 
    -replace-missing <boolean> (property: replaceMissing)
    Whether to replace missing values.
    default: false
 
    -num-components <int> (property: numComponents)
    The number of components to compute.
    default: 20
    minimum: 1
 
    -prediction-type <NONE|ALL|EXCEPT_CLASS> (property: predictionType)
    The type of prediction to perform.
    default: NONE
 
    -class-attributes <adams.core.base.BaseRegExp> (property: classAttributes)
    The regular expression for identifying the class attributes (besides an
    explicitly set one).
    default:
    more: https://docs.oracle.com/javase/tutorial/essential/regex/
    https://docs.oracle.com/en/java/javase/11/docs/api/java.base/java/util/regex/Pattern.html
 
    -kernel <com.github.waikatodatamining.matrix.transformation.kernel.AbstractKernel> (property: kernel)
    The kernel to use
    default: com.github.waikatodatamining.matrix.transformation.kernel.RBFKernel -gamma 1.0
 
    -tol <double> (property: tol)
    The inner NIPALS loop maximum number of iterations.
    default: 1.0E-6
    minimum: 0.0
 
    -max-iter <int> (property: maxIter)
    The inner NIPALS loop improvement tolerance.
    default: 500
    minimum: 1
    Author:
    FracPete (fracpete at waikato dot ac dot nz)
    See Also:
    Serialized Form

    • Field Detail

      • m_Kernel

        protected com.github.waikatodatamining.matrix.transformation.kernel.AbstractKernel m_Kernel
        the kernel to use.

      • m_Tol

        protected double m_Tol
        Inner NIPALS loop improvement tolerance

      • m_MaxIter

        protected int m_MaxIter
        Inner NIPALS loop maximum number of iterations

      • m_KernelPLS

        protected com.github.waikatodatamining.matrix.algorithm.pls.KernelPLS m_KernelPLS
        the actual algorithm.

    • Constructor Detail

      • KernelPLS

        public KernelPLS()

    • Method Detail

      • globalInfo

        public String globalInfo()
        Returns a string describing the object.
        Specified by:
        globalInfo in interface adams.core.GlobalInfoSupporter
        Specified by:
        globalInfo in class adams.core.option.AbstractOptionHandler
        Returns:
        a description suitable for displaying in the gui

      • getTechnicalInformation

        public adams.core.TechnicalInformation getTechnicalInformation()
        Returns an instance of a TechnicalInformation object, containing detailed information about the technical background of this class, e.g., paper reference or book this class is based on.
        Specified by:
        getTechnicalInformation in interface adams.core.TechnicalInformationHandler
        Specified by:
        getTechnicalInformation in class AbstractPLS
        Returns:
        the technical information about this class

      • defineOptions

        public void defineOptions()
        Adds options to the internal list of options.
        Specified by:
        defineOptions in interface adams.core.option.OptionHandler
        Overrides:
        defineOptions in class AbstractMultiClassPLS

      • setKernel

        public void setKernel​(com.github.waikatodatamining.matrix.transformation.kernel.AbstractKernel value)
        Sets the kernel to use.
        Parameters:
        value - the kernel

      • getKernel

        public com.github.waikatodatamining.matrix.transformation.kernel.AbstractKernel getKernel()
        Sets the kernel to use.
        Returns:
        the kernel

      • kernelTipText

        public String kernelTipText()
        Returns the tip text for this property
        Returns:
        tip text for this property suitable for displaying in the explorer/experimenter gui

      • setTol

        public void setTol​(double value)
        Sets the inner NIPALS loop maximum number of iterations.
        Parameters:
        value - the iterations

      • getTol

        public double getTol()
        Sets the inner NIPALS loop maximum number of iterations.
        Returns:
        the iterations

      • tolTipText

        public String tolTipText()
        Returns the tip text for this property
        Returns:
        tip text for this property suitable for displaying in the explorer/experimenter gui

      • setMaxIter

        public void setMaxIter​(int value)
        Sets the inner NIPALS loop improvement tolerance.
        Parameters:
        value - the tolerance

      • getMaxIter

        public int getMaxIter()
        Sets the inner NIPALS loop improvement tolerance.
        Returns:
        the tolerance

      • maxIterTipText

        public String maxIterTipText()
        Returns the tip text for this property
        Returns:
        tip text for this property suitable for displaying in the explorer/experimenter gui

      • getMatrix

        public weka.core.matrix.Matrix getMatrix​(String name)
        Returns the matrix with the specified name.
        Specified by:
        getMatrix in interface GenericPLSMatrixAccess
        Specified by:
        getMatrix in class AbstractPLS
        Parameters:
        name - the name of the matrix
        Returns:
        the matrix, null if not available

      • doTransform

        protected weka.core.Instances doTransform​(weka.core.Instances data,
                                          Map<String,​Object> params)
                                   throws Exception
        Transforms the data, initializes if necessary.
        Specified by:
        doTransform in class AbstractPLS
        Parameters:
        data - the data to use
        params - additional parameters
        Returns:
        the transformed data
        Throws:
        Exception