Uses of Class
ProtPlot

Uses of ProtPlot in

Fields in declared as ProtPlot

private static ProtPlot	Cluster.prp instance of ProtPlot
ProtPlot	Draw2DprotPlot.prp instance of ProtPlot
private ProtPlot	DrawProtScatterPlot.prp instance of ProtPlot
private ProtPlot	EventHandlerPRP.prp instance of ProtPlot
private ProtPlot	ExprProfile.prp link to global prpxplorer instance
(package private) ProtPlot	ExprProfileCanvas.prp instance of ProtPlot so we can clear flags indicating the user did a manual quit()
(package private) ProtPlot	ExprProfilePanel.prp link to global prpxplorer instance
private ProtPlot	ExprProfilePopup.prp link to global ProtPlot instance
private ProtPlot	ExprProfileScrollPane.prp link to global ProtPlot instance
private ProtPlot	FileIOPRP.prp instance of ProtPlot
private ProtPlot	Filter.prp instance of ProtPlot
private ProtPlot	GetListOfPRPs.prp instance of ProtPlot
private static ProtPlot	MathPRP.prp instance of ProtPlot
private ProtPlot	PopupDialogQuery.prp link to global instance to prpxplorer
private ProtPlot	PopupFamilyNameSelector.prp
private static ProtPlot	PopupPRPlistSelector.prp
private ProtPlot	PopupStatusWindow.prp
private ProtPlot	PopupTissueNameSelector.prp
private static ProtPlot	Protein.prp instance of ProtPlot
private ProtPlot	ReadFamilies.prp instance of ProtPlot
private ProtPlot	ReadPRP.prp instance of ProtPlot
private ProtPlot	ReadTissues.prp instance of ProtPlot
private ProtPlot	ReportPRP.prp instance of ProtPlot
(package private) ProtPlot	ShowExprProfilesPopup.prp
private ProtPlot	ShowScatterPlotPopup.prp instance of ProtPlot
private ProtPlot	ShowStringPopup.prp link to global ProtPlot instance
private static ProtPlot	StatisticsPRP.prp instance of ProtPlot
private static ProtPlot	UtilPRP.prp instance of ProtPlot

Constructors in with parameters of type ProtPlot

Cluster(ProtPlot prp)
Cluster() - constructor to setup globals for clustering

Draw2DprotPlot(ProtPlot prp, ShowScatterPlotPopup spp, java.lang.String title)
Draw2Dplot() - constructor

DrawProtScatterPlot(ProtPlot prp, ShowScatterPlotPopup spp)
DrawProtScatterPlot() - constructor

EventHandlerPRP(ProtPlot prp)
EventHandlerPRP() - constructor

ExprProfile(ProtPlot prp, int pid, boolean normToOneFlag)
ExprProfile() - Constructor to create expresion profile object

ExprProfileCanvas(ProtPlot prp, int mPid, java.lang.String title, java.awt.Font lblFont, int preferredWidth, int preferredHeight, boolean drawLabelsFlag)
ExprProfileCanvas() - Constructor to display an expression profile in a canvas.

ExprProfilePanel(ProtPlot prp, int mPid, java.lang.String title, java.awt.Font lblFont, int preferredWidth, int preferredHeight, boolean drawLabelsFlag)
ExprProfilePanel() - Constructor to display expression profile in canvas.

ExprProfilePopup(ProtPlot prp, int mPid, java.lang.String title, java.awt.Font lblFont, int preferredWidth, int preferredHeight, boolean drawLabelsFlag)
ExprProfilePopup() - Constructor to popup expression profile window.

ExprProfileScrollPane(ProtPlot prp, ShowExprProfilesPopup sepp, java.lang.String title, int[] mEPprotList, int nProteins, int preferredPanelWidth)
ExprProfileScrollPane() - Create a popup grid of ExprProfile plots.

FileIOPRP(ProtPlot prp)
FileIOPRP() - constructor

Filter(ProtPlot prp)
Filter() - constructor

GetListOfPRPs(ProtPlot prp, java.lang.String prpEndsWith, java.lang.String msg)
GetListOfPRPs() - constructor

MathPRP(ProtPlot prP)
MathPRP() - constructor for Math package

PopupDialogQuery(ProtPlot prp, java.awt.Frame f, int addButtonsCnt)
PopupDialogQuery() - Constructor

PopupFamilyNameSelector(ProtPlot prp, ShowScatterPlotPopup spp)
PopupFamilyNameSelector() - popup selector for family name(s)

PopupPRPlistSelector(ProtPlot prP, ShowScatterPlotPopup spP, int selType, int curSample, boolean[] curSampleList, boolean allowSetsFlag)
PopupPRPlistSelector() - popup selector

PopupStatusWindow(ProtPlot prp, boolean isVisible)
PopupStatusWindow() - popup status window

PopupTissueNameSelector(ProtPlot prp, ShowScatterPlotPopup spp)
PopupTissueNameSelector() - popup selector for tissue name(s)

Protein(ProtPlot prP)
Protein() - constructor to set prp - MUST BE CALLED FIRST!!!

ReadFamilies(ProtPlot prp, java.lang.String familyNamesFile, int maxFamilies, java.lang.String msg)
ReadFamilies() - constructor

ReadPRP(ProtPlot prp, java.lang.String prpDir, java.lang.String prpFile, int sampleNbr, int maxProteins, java.lang.String msg, boolean strictDataFormatFlag)
ReadPRP() - constructor to read and build a sample data structure.

ReadTissues(ProtPlot prp, java.lang.String tissueNamesFile, int maxTissues, java.lang.String msg)
ReadTissues() - constructor

ReportPRP(ProtPlot prp)
ReportPRP() - constructor

ShowExprProfilesPopup(ProtPlot prp, int[] mEPprotList, int nProteins, java.lang.String title, boolean useLargeFrameFlag)
ShowExprProfilesPopup() - Constructor.

ShowScatterPlotPopup(ProtPlot prp, java.lang.String title)
ShowScatterPlotPopup() - constructor

ShowStringPopup(ProtPlot prp, java.lang.String rptType, java.lang.String textReport, int nRows, int nCols, java.lang.String title, java.lang.String defTxtFile, int optReportMode)
ShowStringPopup() - Constructor.

StatisticsPRP(ProtPlot prP)
StatisticsPRP() - constructor

UtilPRP(ProtPlot prp)
Util() - constructor