Package edu.iastate.metnet.birdseyeview

Class Summary

AbstractView	The AbstractView Class is a template for subclasses to implement specific Bird's Eye Views.
ActionListComboBoxListener
Annotation	The Annotation Class encapsulates the annotation data for one gene product.
AnnotationRenderer	The AnnotationRenderer Class renders an Annotation Text Panel for display in a JList.
AnnotationTextPanel	The AnnotationTextPanel Class holds the text areas that display the annotation data for one gene product.
BirdsEyeView	The BirdsEyeView Class is the main class for the Bird's Eye View API in the Metnet Project.
BirdsEyeViewWindow	The BirdsEyeViewWindow Class enables clients to use the Bird's Eye View API as a stand alone application.
BPathwaySelectionFrame
ButtonPanel	The ButtonPanel Class holds the view combo box, the 'main' experiment combo box, the 'load new data' button, and the GO view buttons.
CheckBoxHandler
ColorPanel
ExperimentChooserPanel	The ExperimentChooserPanel Class holds the experiment chooser combo box and its associated text area.
ExperimentComboBoxListener	The ExperimentComboBoxListener Class handles selections of experiments in the Experiment combo box.
ExploRaseBoxHandler
ExploRaseExpFrame
ExploRaseSubmitListener
GeneColor	The GeneColor Class determines the color of a gene panel based on the experimental variance of the gene product.
GenePanel	The GenePanel Class displays gene product information.
GenePanelLayout	The GenePanelLayout Class constructs a layout in which components are bounded by a square and the individual components are laid out in grid fashion starting in the center of the square.
GenePanelListener	The GenePanelListener Class handles mouse events on the gene panel components.
GoDownListener	The GoDownListener Class handles events for the GoDownButton.
GoUpListener	The GoUpListener Class handles events for the GoUpButton.
ImagePanel	The ImagePanel Class is a panel that consists of an image.
LabelsButtonListener	The LabelsButtonListener Class notifies the controller that the user would like to toggle the map labels.
LegendPanel
LoadButtonListener	The LoadButtonListener Class notifies the controller that the user would like to load new data.
LoadCancelButtonListener	The LoadCancelButtonListener Class handles the action of the user pushing the Cancel button in the load window.
LoadController	The LoadController Class handles the loading of the experimental data for Bird's Eye View.
Loader	The Loader Class reads in a file and returns an array of elements of interest.
LoadFileButtonListener	The LoadFileButtonListener Class handles the file choosing when a user wants to load a data file.
LoadOkButtonListener	The LoadOkButtonListener Class handles the action of the user pushing the Ok button in the load window.
LoadPanel	The LoadPanel Class is a JPanel that displays information about choosing a data file, as well as buttons, etc.
LoadWindow	The LoadWindow Class displays the interface which enables the user to choose which data files to load and which experiment to use for the Bird's Eye View.
MainExperimentComboBoxListener	The MainExperimentComboBoxListener Class handles selections of experiments in the 'Main' Experiment combo box on the button panel.
PathwaySubmitListener
PathwayTreeNode	The Panle shows the tree of pathway as a menu for user to choose so that the genes belonging to this pathway will be shown in cell view or other views.
Polypeptide	The Polypeptide Class is a subclass of protein which defines its type.
Protein	The Protein class is an abstract class that encapsulates the name, metnet entity ID, and type of a protein.
ProteinComplex	The ProteinComplex Class is a subclass of protein which defines its type.
PrototypeAnnotations	The PrototypeAnnotations Class provides annotation data for the prototype of the Bird's Eye View API.
RootPanel	The RootPanel Class contains the functionality for positioning and creating the Bird's Eye View GUI.
SaveButtonListener	The SaveButtonListener Class notifies the controller that the user would like to save the annotation data.
TextArea	The TextArea Class is a simple text area class that will ensure line wrapping of the text and prohibit editing of text.
TextPanel	The TextPanel Class holds rows of AnnotationTextPanel objects.
TreePanel
ViewComboBoxListener	The ViewComboBoxListener Class handles changes to the view combo box.
ViewFactory	The ViewFactory Class is a static factory class that creates AbstractView subclasses.
ViewInfo	The ViewInfo Class holds information about the different Bird's Eye Views such as ID, name, etc.
ViewPanel	The ViewPanel Class is a JPanel that holds the current Bird's Eye View display panel.

Exception Summary

BirdsEyeViewException	The BirdsEyeViewException Class TODO
FieldNotFoundException	The FieldNotFoundException Class handles exceptions in which a desired field was not found in Birds Eye View data.