net.maizegenetics.analysis.modelfitter

Class StepwiseOLSModelFitterPlugin

AbstractPlugin

net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitterPlugin

All Implemented Interfaces:

Plugin, PluginListener, ProgressListener

public class StepwiseOLSModelFitterPlugin
extends AbstractPlugin

Stepwise Ordinary Least Squares model fitter

Constructor Detail

StepwiseOLSModelFitterPlugin

public StepwiseOLSModelFitterPlugin(java.awt.Frame parentFrame,
                                    boolean isInteractive)

StepwiseOLSModelFitterPlugin

public StepwiseOLSModelFitterPlugin()

Method Detail

preProcessParameters

protected void preProcessParameters(DataSet input)

postProcessParameters

protected void postProcessParameters()

processData

public DataSet processData(DataSet input)

getIcon

public javax.swing.ImageIcon getIcon()

getButtonName

public java.lang.String getButtonName()

getToolTipText

public java.lang.String getToolTipText()

getCitation

public java.lang.String getCitation()

runPlugin

public TableReport runPlugin(DataSet input)

Convenience method to run plugin with one return object.

modelType

public net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitter.MODEL_TYPE modelType()

The model selection criteria used to determine which terms enter the model and how many. Value must be one of pvalue, bic, mbic, or aic

Returns:

org.jetbrains.dokka.NodeRenderContent@3d55f8d7: Model type

modelType

public StepwiseOLSModelFitterPlugin modelType(net.maizegenetics.analysis.modelfitter.StepwiseOLSModelFitter.MODEL_TYPE value)

Set Model type. The model selection criteria used to determine which terms enter the model and how many. Value must be one of pvalue, bic, mbic, or aic

Parameters:

value - Model type

Returns:

org.jetbrains.dokka.NodeRenderContent@6a3fd58d: this plugin

enterlimit

public java.lang.Double enterlimit()

The enter limit or maximum p-value for which a term can enter the model

Returns:

org.jetbrains.dokka.NodeRenderContent@441328b7: Entry limit

enterlimit

public StepwiseOLSModelFitterPlugin enterlimit(java.lang.Double value)

Set Entry limit. The enter limit or maximum p-value for which a term can enter the model

Parameters:

value - Entry limit

Returns:

org.jetbrains.dokka.NodeRenderContent@3825aec5: this plugin

exitlimit

public java.lang.Double exitlimit()

A term exits the model on a backward step if its p-value is greater than this value

Returns:

org.jetbrains.dokka.NodeRenderContent@2aa47a56: Exit limit

exitlimit

public StepwiseOLSModelFitterPlugin exitlimit(java.lang.Double value)

Set Exit limit. A term exits the model on a backward step if its p-value is greater than this value

Parameters:

value - Exit limit

Returns:

org.jetbrains.dokka.NodeRenderContent@3e235132: this plugin

maxNumberOfMarkers

public java.lang.Integer maxNumberOfMarkers()

The maximum number of markers that will be fit, if the enter limit is not reached first

Returns:

org.jetbrains.dokka.NodeRenderContent@63a890d1: Maximum markers

maxNumberOfMarkers

public StepwiseOLSModelFitterPlugin maxNumberOfMarkers(java.lang.Integer value)

Set Maximum markers. The maximum number of markers that will be fit, if the enter limit is not reached first

Parameters:

value - Maximum markers

Returns:

org.jetbrains.dokka.NodeRenderContent@76ee59e7: this plugin

nestMarkers

public java.lang.Boolean nestMarkers()

Should markers be nested within a model factor

Returns:

org.jetbrains.dokka.NodeRenderContent@7f91fba6: Nest markers

nestMarkers

public StepwiseOLSModelFitterPlugin nestMarkers(java.lang.Boolean value)

Set Nest markers. Should markers be nested within a model factor

Parameters:

value - Nest markers

Returns:

org.jetbrains.dokka.NodeRenderContent@5b1f8fa7: this plugin

nestingFactor

public java.lang.String nestingFactor()

Nest markers within this factor.

Returns:

org.jetbrains.dokka.NodeRenderContent@7c96a20d: Nesting factor

nestingFactor

public StepwiseOLSModelFitterPlugin nestingFactor(java.lang.String value)

Set Nesting factor. Nest markers within this factor.

Parameters:

value - Nesting factor

Returns:

org.jetbrains.dokka.NodeRenderContent@7833ed19: this plugin

numberOfPermutations

public java.lang.Integer numberOfPermutations()

Number of permutations for the model to determine an empirical alpha

Returns:

org.jetbrains.dokka.NodeRenderContent@80f7572: Number of permutations

numberOfPermutations

public StepwiseOLSModelFitterPlugin numberOfPermutations(java.lang.Integer value)

Set Number of permutations. Number of permutations for the model to determine an empirical alpha

Parameters:

value - Number of permutations

Returns:

org.jetbrains.dokka.NodeRenderContent@2f4ab163: this plugin