org.biojava.stats.svm.tools

Class ClassifierExample.PointClassifier

java.lang.Object

java.awt.Component

java.awt.Container

javax.swing.JComponent

org.biojava.stats.svm.tools.ClassifierExample.PointClassifier

All Implemented Interfaces:

ImageObserver, MenuContainer, Serializable

Enclosing class:

ClassifierExample

public static class ClassifierExample.PointClassifier
extends JComponent

An extention of JComponent that contains the points & encapsulates the classifier.

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class javax.swing.JComponent

JComponent.AccessibleJComponent

Nested classes/interfaces inherited from class java.awt.Container

Container.AccessibleAWTContainer

Nested classes/interfaces inherited from class java.awt.Component

Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy

Field Summary

Fields

Modifier and Type	Field and Description
static SVMKernel	polyKernel
static SVMKernel	rbfKernel
static SMOTrainer	trainer

Fields inherited from class javax.swing.JComponent

listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component

accessibleContext, BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

Constructors

Constructor and Description
PointClassifier() Make a new PointClassifier.

Method Summary

Modifier and Type	Method and Description
void	classify() Learn a model from the current points.
void	clear() Remove all points from the canvas, and discard any model.
boolean	getAddPos() Retrieve the current value of addPos.
SVMKernel	getKernel() Retrieve the currently used kernel
Shape	getNegShape() Retrieve the shape used to represent negative points.
Shape	getPosShape() Retrieve the shape used to represent positive points.
void	paintComponent(Graphics g) Renders this component to display the points, and if present, the support vector machine.
void	setAddPos(boolean addPos) Set a flag so that newly added points will be in the positive class or negative class, depending on wether addPos is true or false respectively.
void	setKernel(SVMKernel kernel) Set the kernel used for classification.
void	setNegShape(Shape negShape) Set the Shape to represent the negative points.
void	setPosShape(Shape posShape) Set the Shape to represent the positive points.

Methods inherited from class javax.swing.JComponent

addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getPreferredSize, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getUIClassID, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, hide, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingOrigin, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, paintImmediately, paintImmediately, paramString, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFocusTraversalKeys, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update, updateUI

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, addImpl, addPropertyChangeListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, getMousePosition, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusDownCycle, validate, validateTree

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getAccessibleContext, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

polyKernel

public static SVMKernel polyKernel

rbfKernel

public static SVMKernel rbfKernel

trainer

public static SMOTrainer trainer

Constructor Detail

PointClassifier

public PointClassifier()

Make a new PointClassifier.

Hooks up the mouse listener & cursor. Chooses default colors & Shapes.

Method Detail

setKernel

public void setKernel(SVMKernel kernel)

Set the kernel used for classification.

Parameters:

kernel - the SVMKernel to use

getKernel

public SVMKernel getKernel()

Retrieve the currently used kernel

Returns:

the current value of the kernel.

setAddPos

public void setAddPos(boolean addPos)

Set a flag so that newly added points will be in the positive class or negative class, depending on wether addPos is true or false respectively.

Parameters:

addPos - boolean to flag which class to add new points to

getAddPos

public boolean getAddPos()

Retrieve the current value of addPos.

Returns:

true if new points will be added to the positive examples and false if they will be added to the negative examples.

setPosShape

public void setPosShape(Shape posShape)

Set the Shape to represent the positive points.

The shape should be positioned so that 0, 0 is the center or focus.

Parameters:

posShape - the Shape to use

getPosShape

public Shape getPosShape()

Retrieve the shape used to represent positive points.

Returns:

the current positive Shape

setNegShape

public void setNegShape(Shape negShape)

Set the Shape to represent the negative points.

The shape should be positioned so that 0, 0 is the center or focus.

Parameters:

negShape - the Shape to use

getNegShape

public Shape getNegShape()

Retrieve the shape used to represent negative points.

Returns:

the current negative Shape

clear

public void clear()

Remove all points from the canvas, and discard any model.

classify

public void classify()

Learn a model from the current points.

This may take some time for complicated models.

paintComponent

public void paintComponent(Graphics g)

Renders this component to display the points, and if present, the support vector machine.

Overrides:

paintComponent in class JComponent