retina
Class PCAWindow

java.lang.Object
  java.awt.Component
      java.awt.Container
          java.awt.Window
              java.awt.Frame
                  ij.gui.ImageWindow
                      ij.gui.StackWindow
                          retina.PCAWindow

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.AdjustmentListener, java.awt.event.FocusListener, java.awt.event.MouseWheelListener, java.awt.event.WindowListener, java.awt.event.WindowStateListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.lang.Runnable, java.util.EventListener, javax.accessibility.Accessible

public class PCAWindow
extends ij.gui.StackWindow
implements java.awt.event.AdjustmentListener, java.awt.event.ActionListener

Window to do various types of PCA analysis. Adds several methods to PCA_ for OID analysis. (c) 2003 Michael Abramoff. All rights reserved.

See Also:

Serialized Form

Nested Class Summary

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

java.awt.Component.BaselineResizeBehavior

Field Summary

Fields inherited from class ij.gui.ImageWindow

MIN_HEIGHT, MIN_WIDTH, running, running2

Fields inherited from class java.awt.Frame

CROSSHAIR_CURSOR, DEFAULT_CURSOR, E_RESIZE_CURSOR, HAND_CURSOR, ICONIFIED, MAXIMIZED_BOTH, MAXIMIZED_HORIZ, MAXIMIZED_VERT, MOVE_CURSOR, N_RESIZE_CURSOR, NE_RESIZE_CURSOR, NORMAL, NW_RESIZE_CURSOR, S_RESIZE_CURSOR, SE_RESIZE_CURSOR, SW_RESIZE_CURSOR, TEXT_CURSOR, W_RESIZE_CURSOR, WAIT_CURSOR

Fields inherited from class java.awt.Component

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

PCAWindow(ij.ImagePlus imp, ij.gui.ImageCanvas ic, BIJpca pca)
Create an extended PCA window from a StackWindow.

Method Summary

void	actionPerformed(java.awt.event.ActionEvent e) Act upon buttons pressed.
void	addPanel() Add the GUI items to this Window.
void	adjustmentValueChanged(java.awt.event.AdjustmentEvent e) User has moved the slider on the StackWindow.
void	mapClean() Compute a cleaned image sequence from only the attractive eigenvalues.
void	mapCoordinates() Map the eigenvector matrix into an image.
void	mapIndicatorFunction() Compute the indicator function image for two conditions.
void	mapTruncatedDifference() Compute an image that is the truncated difference of the stimulus and non-stimulus conditions stim.

Methods inherited from class ij.gui.StackWindow

close, mouseWheelMoved, run, showSlice, updateSliceSelector

Methods inherited from class ij.gui.ImageWindow

centerNextImage, copy, createSubtitle, drawInfo, focusGained, focusLost, getCanvas, getImagePlus, getInitialMagnification, getInsets, getMaximumBounds, isClosed, maximize, minimize, mouseMoved, paint, paste, toString, updateImage, windowActivated, windowClosed, windowClosing, windowDeactivated, windowDeiconified, windowIconified, windowOpened, windowStateChanged

Methods inherited from class java.awt.Frame

addNotify, getAccessibleContext, getCursorType, getExtendedState, getFrames, getIconImage, getMaximizedBounds, getMenuBar, getState, getTitle, isResizable, isUndecorated, remove, removeNotify, setCursor, setExtendedState, setIconImage, setMaximizedBounds, setMenuBar, setResizable, setState, setTitle, setUndecorated

Methods inherited from class java.awt.Window

addPropertyChangeListener, addPropertyChangeListener, addWindowFocusListener, addWindowListener, addWindowStateListener, applyResourceBundle, applyResourceBundle, createBufferStrategy, createBufferStrategy, dispose, getBufferStrategy, getFocusableWindowState, getFocusCycleRootAncestor, getFocusOwner, getFocusTraversalKeys, getGraphicsConfiguration, getIconImages, getInputContext, getListeners, getLocale, getModalExclusionType, getMostRecentFocusOwner, getOwnedWindows, getOwner, getOwnerlessWindows, getToolkit, getWarningString, getWindowFocusListeners, getWindowListeners, getWindows, getWindowStateListeners, hide, isActive, isAlwaysOnTop, isAlwaysOnTopSupported, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isShowing, pack, postEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, reshape, setAlwaysOnTop, setBounds, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setIconImages, setLocationByPlatform, setLocationRelativeTo, setMinimumSize, setModalExclusionType, setSize, setSize, setVisible, show, toBack, toFront

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getAlignmentX, getAlignmentY, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalPolicy, getLayout, getMaximumSize, getMinimumSize, getMousePosition, getPreferredSize, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, print, printComponents, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, setLayout, transferFocusBackward, transferFocusDownCycle, update, validate

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, contains, contains, createImage, createImage, createVolatileImage, createVolatileImage, disable, dispatchEvent, enable, enable, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBaseline, getBaselineResizeBehavior, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphics, getHeight, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocation, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getSize, getTreeLock, getWidth, getX, getY, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isDoubleBuffered, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isOpaque, isPreferredSizeSet, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, prepareImage, prepareImage, printAll, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, repaint, requestFocus, requestFocusInWindow, resize, resize, setBackground, setComponentOrientation, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setLocation, setLocation, setMaximumSize, setName, setPreferredSize, show, size, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.awt.MenuContainer

getFont, postEvent

Constructor Detail

PCAWindow

public PCAWindow(ij.ImagePlus imp,
                 ij.gui.ImageCanvas ic,
                 BIJpca pca)

Create an extended PCA window from a StackWindow.

Parameters:

imp - the ImagePlus to create the PCAWindow from

an - ImageCanvas that adds a second window for displaying plots.

pca - the BIJpca containing a pca analysis with all variables.

Method Detail

addPanel

public void addPanel()

Add the GUI items to this Window. Creates a second ImageCanvas to the panel, and some TextFields and buttons for interfacing.

adjustmentValueChanged

public void adjustmentValueChanged(java.awt.event.AdjustmentEvent e)

User has moved the slider on the StackWindow. Make sure you also update the plot window.

Specified by:

adjustmentValueChanged in interface java.awt.event.AdjustmentListener

Overrides:

adjustmentValueChanged in class ij.gui.StackWindow

actionPerformed

public void actionPerformed(java.awt.event.ActionEvent e)

Act upon buttons pressed.

Specified by:

actionPerformed in interface java.awt.event.ActionListener

Overrides:

actionPerformed in class ij.gui.StackWindow

mapCoordinates

public void mapCoordinates()

Map the eigenvector matrix into an image.

mapClean

public void mapClean()

Compute a cleaned image sequence from only the attractive eigenvalues.

mapTruncatedDifference

public void mapTruncatedDifference()

Compute an image that is the truncated difference of the stimulus and non-stimulus conditions stim.

mapIndicatorFunction

public void mapIndicatorFunction()

Compute the indicator function image for two conditions. Everson, 1997. Uses stim, the condition indicator, which is known to have zero mean unit variance.