Package gov.nih.mipav.view.dialogs

Interface Summary

Interface	Description
ActionDiscovery	Classes which implement this interface are able to report metainformation about themselves, return their input and output parameters, run their action using a set of input parameters, retrieve the real name of images they output, and return whether they have completed successfully.
ActionMetadata
AlgorithmTreParams	This interface contains convenience enumerations for going between the dialog and algorithm of the TRE framework.
DicomTagSelectorImpl	Dialogs which implement this interface are eligible to use the JDialogDicomTagSelector for selecting DICOM tags within a given image file.
RegionGrowDialog	Interface for dialogs which gather region grow information and then update a list of listeners who want to know about the region grow.

Class Summary

Class	Description
AlgorithmParameters	This class standardizes the parameter names given to many common parameters used in algorithms.
BlankJistHook	This class is an example class for tying existing plugins into the JIST interface.
DataProvenanceParameters	This class standardizes the parameter names given to many common parameters used in algorithms.
DialogDTIColorDisplay
GuiBuilder	Provides methods for quickly building panel components.
InstanceVOI	The VOI instance holds the file name and directory name for each type of the VOIs (Axial, Sagittal, Coronal) Additionally, myContourVector is the chunk vector to hold the 3D coordinate points of VOIs for each type.
JDialog3DMosaicTo4DSlices	Dialog to get user input, then call the algorithm.
JDialog4DImageCalculator
JDialogACPC	Dialog to enter points for creating an ACPC image.
JDialogActiveContoursWithoutEdges	Dialog to get user input, then call the algorithm.
JDialogAdaptiveKuwaharaFilter	DOCUMENT ME!
JDialogAddMargins	Creates the dialog to add margins around the image.
JDialogAGCIE	DOCUMENT ME!
JDialogAGVF	Dialog to get user input, then call the snake-like algorithm.
JDialogAHE	Adaptive Histogram Equlization.
JDialogAHElocal	Dialog to get user input, then call the algorithm.
JDialogAINDANE	DOCUMENT ME!
JDialogAnalyzeNIFTIChoice	Confirmation Dialog giving user the choice to write an analyze file , interfile file, or a nifti file.
JDialogAnimate	Dialog to get scale factor and interpolation method to create initial image forwarded to ViewJFrameAnimate.
JDialogAnisotropicDiffusion	Dialog to get user input, then call the algorithm.
JDialogAnnotation	Dialog for creating new/editing existing on-screen annotations.
JDialogAnonymizeDirectory	Visual Interface to anonymize DICOM images by the directory-full.
JDialogAnonymizeImage	REALLY like JDialogRemoveSlices except it does not have an "algorithm"
JDialogAnonymizePresets
JDialogAntigradient2	Dialog to get user input, then call the algorithm.
JDialogAnyTwoImagesSNR	Dialog to get user input any two images SNR Algorithms are executed in their own thread.
JDialogAutoCorrelation	Dialog to call AlgorithmAutoCorrelation.
JDialogAutoCovariance	Dialog to call AlgorithmAutoCovariance.
JDialogAutoSeedWatershed	DOCUMENT ME!
JDialogAVIChoice	Confirmation Dialog giving user the choice to choose what type of compression to use when saving to AVI format.
JDialogBarrelDistortion	Dialog for correcting barrel and/or pincushion distortion
JDialogBase	This class is the base for all the other dialogs.
JDialogBGAndFGDistanceMap
JDialogBGDistanceMap	Dialog to get user input, then call the algorithm for BG distance map.
JDialogBilateralFilter	Dialog to get user input, then call the algorithm.
JDialogBiorthogonalWavelets	Dialog to get user input, then call the algorithm.
JDialogBlankImage	Dialog to get image type for blank image.
JDialogBM3D	Dialog to get user input, then call the algorithm.
JDialogBorderClearing	Dialog to get user input, then call the algorithm.
JDialogBottomHat	Dialog to get user input, then call the algorithm.
JDialogBoundaryAttenuation	Dialog for an algorithm which reduces the intensity of an image near the boundary of the VOIs within an image volume.
JDialogBoundingVOIs
JDialogBoxCount	Dialog to call AlgorithmBoxCount.
JDialogBrainSurfaceExtractor	This dialog collects parameters for the BSE algorithm and then starts it up.
JDialogBrightness	This class creates a simple dialog in which the user can specify a brightness integer and a contrast float using sliders.
JDialogBRISK	DOCUMENT ME!
JDialogBSmooth	Dialog to get user input, then call the algorithm for smoothing VOIs.
JDialogBSnake	Dialog to get user input, then call the algorithm.
JDialogBulkImageCalculator
JDialogCannyEdgeDetection	DOCUMENT ME!
JDialogCaptureScreen	Dialog for creating and saving a screen capture to a TIFF file.
JDialogCaptureScreens	Dialog (invisible) for capturing slices of a 3d/4d image into a new image.
JDialogCenterOfMass	Dialog to get user input, then call the algorithm.
JDialogCenterOfMassRGB	Title: JDialogCenterOfMassRGB
JDialogCentroidThreshold	Creates the dialog to input inital centroid values and threshold value for each class for AlgorithmMSpectralFuzzyCMeans.
JDialogChangeMaskNumber	This is a dialog that allows the user to change the mask number on the buttons
JDialogCheckerBoard	Dialog to get the row and column numbers of checkerboard squares
JDialogCircleGeneration	Dialog to create an image with randomly spaced, aggregated, regular or uniform, or constrained circles of the same size
JDialogCircleToRectangle	Dialog to get user input of circle center and point on circle curve and output xDim and yDim of rectangle created from transformed circle.
JDialogCircularSectorToRectangle	Dialog to get user input of 4 bounding sector points and output xDim and yDim of rectangle created from transformed sector.
JDialogClose	Dialog to get user input, then call the algorithm.
JDialogCoherenceEnhancingDiffusion	Dialog to get user input, then call a specified diffusion algorithm.
JDialogColocalizationEM	Dialog to get user input Identify colocalized pixels Algorithms are executed in their own thread.
JDialogColocalizationRegression	Dialog to get user input Calculate Pearson's correlation coefficient Calculate P value for this correlation coefficient Identify colocalized pixels Algorithms are executed in their own thread.
JDialogColorEdge	GUI for entering parameters for the Color Edge algorithm and making it scriptable.
JDialogColorSaturation	Dialog for adjusting color saturation
JDialogConcat	Dialog to get user input, then call the algorithm.
JDialogConcatMult2Dto3D
JDialogConcatMult3Dto3D
JDialogConcatMult3Dto4D
JDialogConstrainedOAR3D	Dialog to get user input, then call algorithm RegistrationOAR3D.
JDialogContrastEnhancementUsingExposureFusion	DOCUMENT ME!
JDialogConvergenceField	DOCUMENT ME!
JDialogConvert3Dto4D	Dialog to call the AlgorithmConvert3Dto4D to convert a 3D data set into a 4D data set.
JDialogConvert4Dto3D	Dialog to call the AlgorithmConvert4Dto3D to convert the current image from a 4D one to a 3D one.
JDialogConvert4DtoMultiple3D
JDialogConvert4DtoRGB
JDialogConvertType	Simple dialog to convert the type of an image.
JDialogConvexHull2D	Dialog to get user input, then call the algorithm for smoothing VOIs.
JDialogCorrectSpacing	Algorithm to adjust image volume for cases when the slice spacing is not equal to the slice thickness.
JDialogCrop	Dialog to get user input, then call the crop algorithm.
JDialogCropBoundaryParam	Creates the dialog to crop pixels around the image.
JDialogCropPointParam	Creates the dialog to crop pixels around the selected point.
JDialogCropTiltedCuboid	Creates the dialog to crop pixels around the 8 selected tilted cuboid points.
JDialogCropTiltedRectangle	Creates the dialog to crop pixels around the 4 selected tilted rectangle points.
JDialogCT	Simple dialog for CT window presets.
JDialogCTHistoLUT	Simple dialog for CT window presets.
JDialogCTPreset	Simple dialog for CT window presets.
JDialogCumulativeHistogram	DOCUMENT ME!
JDialogCyclicPermutation	Creates the dialog to cyclically permute pixels around the image.
JDialogDataProvenance	Simple dialog used to show the image or system data provenance (by passing in a provenanceholder Displays data in table format, and the currently selected item will show up in the JTextArea (not editable, but selectable)
JDialogDBSCANClusteringSegment	Dialog to get user input, then call the algorithm.
JDialogDeconvolution
JDialogDeleteObjects	Dialog to get user input, then call the algorithm.
JDialogDemonsLite	Dialog box for Demons
JDialogDEMRI3	Dialog to get user input for 3 parameter dynamic (contrast) enhanced MRI model or DEMRI model
JDialogDicom2XMLSelection	Dialog to select DICOM files to convert to MIPAV XML or Minc 2.0 HDF format.
JDialogDICOMDeleteTagEditor	dialog for deleting DICOM tag information currently allows a limited number of special tags (procssing of which must be performed by the DICOM tag itself), but allows editing seperate multiplicity values.
JDialogDicomDir	Simple dialog used to show the contents of a selected DICOMDIR file.
JDialogDICOMNewTagEditor	dialog for adding new DICOM tag information currently allows a limited number of special tags (procssing of which must be performed by the DICOM tag itself), but allows editing seperate multiplicity values.
JDialogDICOMTagEditor	dialog for editing DICOM tag information currently allows a limited number of special tags (procssing of which must be performed by the DICOM tag itself), but allows editing seperate multiplicity values.
JDialogDicomTagMultiEditor
JDialogDicomTagSelector	This class allows for DICOM tags to be selected.
JDialogDICOMtoAVI	Title: JDialogDICOMtoAVI
JDialogDilate	Dialog to get user input, then call the algorithm.
JDialogDirectResample	Dialog to ask user to resample the images or not.
JDialogDiscreteCosineTransform	Dialog to get user input, then call the algorithm.
JDialogDiscreteSineTransform	Dialog to get user input, then call the algorithm.
JDialogDistanceMap	Dialog to get user input, then call the algorithm.
JDialogDoublyConnectedSC	Dialog to get Schwarz-Christoffel mapping of region between 2 polygons to an annulus
JDialogDSC_MRI_toolbox
JDialogDTICreateListFile
JDialogDTICreateListFileRegOAR35DOptions
JDialogDTIEstimateTensor
JDialogDualContourSearch	Dialog to get user search for best boundary between 2 contours
JDialogDualTriImageCrop	DOCUMENT ME!
JDialogDualTriImagePaintGrow	DOCUMENT ME!
JDialogDualTriImageTransformation	DOCUMENT ME!
JDialogEdgeDetection3D	DOCUMENT ME!
JDialogEdgeLaplacian	Dialog to get user input, then call the algorithm.
JDialogEdgeNMSuppression	Dialog to get user input, then call the algorithm.
JDialogEdgePreservingSmoothing
JDialogEditCircleDiameter
JDialogEditor	Simple editor using JPanelEdits.
JDialogEditSquareLength
JDialogEditUserDefinedFileTypes	This class is the dialog that allows the user to edit the user defined file extensions filter
JDialogEfficientWatershed	Dialog to get user input, then call the algorithm.
JDialogEllipseGeneration	Dialog to create an image with randomly spaced, aggregated, regular or uniform, or constrained ellipses of the same size
JDialogEllipseToCircle	Dialog to get user input of ellipse which will be conformally mapped to a circle.
JDialogEllipseToRectangle	Dialog to get user input of ellipse which will be conformally mapped to a rectangle.
JDialogEmbeddedConfidenceEdgeDetection
JDialogEnhancedDicomChoice	Confirmation Dialog giving user the choice to write an enhanced dicom MR, CT, XA, or Other file.
JDialogEntropicEdgeDetection	DOCUMENT ME!
JDialogEntropyMinimization	DOCUMENT ME!
JDialogErode	Dialog to get user input, then call the algorithm.
JDialogEvaluateMaskSegmentation	Dialog to get user input, then call AlgorithmEvaluateMaskSegmentation.
JDialogEvaluateSegmentation	Dialog to get user input, then call AlgorithmEvaluateSegmentation.
JDialogEvolveBoundaryManual
JDialogExtractBrain	DOCUMENT ME!
JDialogExtractObject	DOCUMENT ME!
JDialogExtractSlices	Dialog to call the extractSlices.
JDialogExtractSlicesVolumes	Creates the dialog to remove separate slices in an image.
JDialogExtractSurfaceCubes	Extracts a surface using Cube Extraction.
JDialogFaceAnonymize
JDialogFaceAnonymizerBET	Dialog used to input parameters and start the BET-based face anonymizer.
JDialogFacetModel	Dialog to get user input, then call the algorithm.
JDialogFastMarching
JDialogFFT	Dialog to get user input, then call the algorithm.
JDialogFileInfo	This class shows the dialog which conatains the file-info header information as used in the FileInfoBase class.
JDialogFileInfoDICOM	This class shows the dialog which contains the DICOM header information as contained in the FileInfoDicom class.
JDialogFileInfoDICOM.RowData
JDialogFileInfoMinc	Text dialog filled with the a minc image's file info.
JDialogFileInfoMincHDF
JDialogFileInfoXML	This class shows the dialog which conatains the file-info header information as used in the FileInfoBase class.
JDialogFillObjects	DOCUMENT ME!
JDialogFilterChoice	Simple dialog to choose the filter for the view image directory.
JDialogFindEdges	Dialog to get user input, then call the algorithm.
JDialogFIREEdgeExtraction	DOCUMENT ME!
JDialogFlip	Dialog to call the image flip.
JDialogFrameLinker	Dialog to get user input, then call the algorithm.
JDialogFRAP	Dialog to get user input Fluorescence recovery after photobleaching Algorithms are executed in their own thread.
JDialogFrequencyFilter	Dialog to get user input, then call the algorithm.
JDialogFRET	Dialog to get user input Fluorescence resonance energy transfer Algorithms are executed in their own thread.
JDialogFRETBleedThrough	Dialog to get user input, then call the algorithm.
JDialogFRETEfficiency	Dialog to get user input, then call the algorithm.
JDialogFuzzMinDeAndChatterji	Dialog to get user input, then call the algorithm.
JDialogFuzzyCMeans	Dialog to get user input, then call the algorithm.
JDialogFuzzyConnectednessSegmentation	DOCUMENT ME!
JDialogFuzzyMinimization	Dialog to get user input, then call the algorithm.
JDialogGaborFilter	Dialog to get user input, then call the algorithm.
JDialogGaussianBlur	Dialog to get user input, then call the algorithm.
JDialogGenerateGrid
JDialogGenerateIsolines
JDialogGradientInverseWeightedSmoothing	DOCUMENT ME!
JDialogGradientMagnitude	Dialog to get user input, then call the algorithm.
JDialogGraphBasedSegmentation	DOCUMENT ME!
JDialogGridOptions	Sets options for overlaying a grid on the image.
JDialogGUIDClient	Title:
JDialogGuidedFilter	Dialog to get user input, then call the algorithm.
JDialogGVF	Dialog to get user input, then call the algorithm.
JDialogHaarTransform	Dialog to get user input, then call the algorithm.
JDialogHaralickTexture	Dialog to get user input, then call the algorithm.
JDialogHarrisCornerDetector	DOCUMENT ME!
JDialogHarrisLaplace	DOCUMENT ME!
JDialogHartleyTransform	Dialog to get user input, then call the algorithm.
JDialogHessian	Dialog to get user input, then call the algorithm.
JDialogHillClimbingWatershed	Dialog to get user input, then call the algorithm.
JDialogHistogram2Dim	Dialog to get user input Create 2D histogram of images with equal dimensions or 2D histograms with 2 colors inside a RGB image.
JDialogHistogramLUT	Deprecated.
JDialogHistogramMatch	Dialog to get user input Selected image is match image, the image that gets transformed until it is histogram matched to the base image.
JDialogHistogramSliceMatch	Dialog to get user input reference slice.
JDialogHistogramSummary	Dialog to choose images, then call the RGBConcat algorithm.
JDialogHMRF_EM
JDialogHomomorphicFilter	Dialog to get user input, then call the algorithm.
JDialogHoughCardioid	Dialog to create Hough transform with x0, y0, rad output for cardioid detection in binary image, where sqrt((x - x0)**2 + (y - y0)**2) = a*(1 - cos(theta + theta0)) sqrt((x - x0)**2 + (y - y0)**2) = a*(1 + cos(theta)) for cusp on left sqrt((x - x0)**2 + (y - y0)**2) = a*(1 - cos(theta)) for cusp on right sqrt((x - x0)**2 + (y - y0)**2) = a*(1 + sin(theta)) for cusp on top sqrt((x - x0)**2 + (y - y0)**2) = a*(1 - sin(theta)) for cusp on bottom
JDialogHoughCardioidChoice	Confirmation Dialog giving user the choice to choose which cardioids to draw.
JDialogHoughCircle	Dialog to create Hough transform with x0, y0, rad output for circle detection in binary image, where (x - x0)**2 + (y - y0)**2 = rad**2
JDialogHoughCircleChoice	Confirmation Dialog giving user the choice to choose which circles to draw.
JDialogHoughEllipse	Dialog to create Hough transform with p, q, r1, r2, and theta output for ellipse detection in binary image, where p is the x coordinate of the ellipse center, q is the y coordinate of the ellipse center, r1 is the semimajor axis (or major radius), r2 is the semiminor axis (or minor radius), and theta is the angle of the major axis with the x axis.
JDialogHoughEllipseChoice	Confirmation Dialog giving user the choice to choose which ellipses to draw.
JDialogHoughHyperbola	Dialog to create Hough transform with p, q, r1, r2, and theta output for hyperbola detection in binary image, where p is the x coordinate of the hyperbola center, q is the y coordinate of the hyperbola center, r1 is the 1/2 the transverse axis, r2 is 1/2 the conjugate axis, and theta is the angle of the transverse axis with the x axis.
JDialogHoughHyperbolaChoice	Confirmation Dialog giving user the choice to choose which hyperbolas to draw.
JDialogHoughLine	Dialog to create Hough transform with rho, theta output for line detection of binary image
JDialogHoughLineChoice	Confirmation Dialog giving user the choice to choose which lines to fill gaps on and the maximum distance of the gap to be filled for each line..
JDialogHoughParabola	Dialog to create Hough transform with xv, yv, phi, p output for parabola detection in binary image, where [(y - yv)*cos(phi) - (x - xv)*sin(phi)]**2 = 4*p*[(y - vy)*sin(phi) + (x - vx)*cos(phi)] where vx, vy are the coordinates of the parabola vertex p is the distance between the vertex and focus of the parabola
JDialogHoughParabolaChoice	Confirmation Dialog giving user the choice to choose which parabolas to draw.
JDialogHurstIndex	Dialog to get user input, then call the algorithm.
JDialogIAGCWD	DOCUMENT ME!
JDialogIDObjects	Dialog to get user input, then call the algorithm.
JDialogIHN3Correction	Dialog to get user input, then call the algorithm.
JDialogImageCalculator	Dialog to get user input, then call the algorithm.
JDialogImageInfo	The image attribute input dialog, which consists of six tabbled panes allowing the user to edit image name, resolutions, orientations, dataset origin, history, and transformation matrix.
JDialogImageMath	Dialog to get user input, then call the algorithm.
JDialogImRegPOC	Dialog to get user input, then call the algorithm.
JDialogIndependentComponents	Dialog to get user input, then call the algorithm.
JDialogInitialCentroids	Creates the dialog to input inital centroid values for each class for AlgorithmFuzzyCMeans.
JDialogInsertMissingSlices	Creates the dialog to insert missing slices into an image.
JDialogInsertSlice	Creates the dialog to insert slice into an image.
JDialogInsertVolume
JDialogInstallPlugin	Simple dialog to install a plugin.
JDialogIntensityHistogram	Title:
JDialogIntensityPaint	Simple dialog to change desired intensity level for painting.
JDialogIntensityThreshold	Title:
JDialogInvert	Simple dialog to invert an image - substitute light intensities for dark intensities and dark intensities for light intensities.
JDialogIsophoteCurvature	Dialog to get user input, then call the algorithm.
JDialogKernelRegression	Dialog to get user input, then call the algorithm.
JDialogKMeans
JDialogLaplacian	Dialog to get user input, then call the algorithm.
JDialogLawsTexture	Dialog to get user input, then call the algorithm.
JDialogLevelSet	Dialog to get user input, then call the algorithm.
JDialogLevelSetDiffusion	Dialog to get user input, then call the algorithm.
JDialogLightBox	This class builds the control dialog used in ViewJFrameLightbox class.
JDialogLightboxGen	Dialog to get user input, then call the algorithm...
JDialogListSaveSelection	A basic dialog to read and parse the two options files, display the options in the files, and allow file action between the two.
JDialogLivewire	Simple dialog to choose which cost function to use for the live wire.
JDialogLLE	DOCUMENT ME!
JDialogLoadImage	JDialogLoadImage allows the MIPAV user to import an image (namely, ImageA) from another image frame.
JDialogLoadImageForRegistration	JDialogLoadImage allows the MIPAV user to import an image (namely, ImageA) from another image frame.
JDialogLoadLeica	Creates the dialog to remove separate slices in an image.
JDialogLocalNormalization	This is the dialog to permit user to perform Local Normalization.
JDialogLocalVariance	Dialog to get user input, then call the algorithm.
JDialogLogSlopeMapping
JDialogLowerCompletion	Dialog to get user input, then call the algorithm.
JDialogLuminanceAdaptation	DOCUMENT ME!
JDialogMagnificationControls	Simple dialog to change Magnification Box Settings.
JDialogMarkovSegment	Dialog to get user input, then call the algorithm.
JDialogMarkovSmooth	Dialog to get user input, then call the algorithm.
JDialogMask	Dialog to get user input, then call the algorithm.
JDialogMask3D4D	Dialog to get user input, then call the algorithm.
JDialogMatchImages	Dialog to get user input, then call the algorithm...
JDialogMaximumIntensityProjection	Dialog to call Maximum Intensity Projection.
JDialogMaximumLikelihoodIteratedBlindDeconvolution	Dialog that launches the Maximum likelihood iterated blind deconvolution algorithm.
JDialogMean	Dialog to get user input, then call the algorithm.
JDialogMeanShiftClustering
JDialogMeanShiftSegmentation
JDialogMedian	Dialog to get user input, then call the algorithm.
JDialogMemoryAllocation	Dialog to alter memory allocation of the runtime environment.
JDialogMetaImageChoice	Confirmation Dialog giving user the choice to choose what type of MetaImage file to write.
JDialogMidsagittal	Dialog to get user input, then call the midsagittal alignment algorithm.
JDialogMipavOptions	This dialog contains access to MIPAV preferences.
JDialogMode	Dialog to get user input, then call AlgorithmMode.
JDialogMorphologicalFilter	Dialog to get user input, then call the algorithm.
JDialogMorphologicalGradient	Dialog to get user input, then call the algorithm.
JDialogMorphologicalLaplacian	Dialog to get user input, then call the algorithm.
JDialogMorphologicalReconstruction	Dialog to get user input, then call the algorithm.
JDialogMosaicToSlices	Dialog to get user input, then call the algorithm.
JDialogMRIShadingCorrection	Dialog to get user input, then call the algorithm.
JDialogMSER	DOCUMENT ME!
JDialogMSFuzzyCMeans	Dialog to get user input, then call the algorithm.
JDialogMultiPaint	.
JDialogMultiResolutionBilateralFilter	Dialog to get user input, then call the algorithm.
JDialogMultiResolutionGuidedFilter	Dialog to get user input, then call the algorithm.
JDialogN4MRIBiasFieldCorrection	Dialog to get user input, then call the algorithm.
JDialogNColors	Simple dialog to change the number of colors in the histogram LUT.
JDialogNearlyCircleToCircle	Dialog to get user input of a nearly circular region which will be conformally mapped to a circle.
JDialogNIFTIChoice	Confirmation Dialog giving user the choice to choose what type of NIFTI file to write.
JDialogNLMeans_filt2D	Dialog to get user input, then call the algorithm.
JDialogNLNoiseReduction	Dialog to get user input, then call the algorithm.
JDialogNMSuppression	Dialog to get user input, then call the algorithm.
JDialogNoise	DOCUMENT ME!
JDialogNoiseLevel	DOCUMENT ME!
JDialogNonlocalMeansFilter	Dialog to get user input, then call the algorithm.
JDialogOpacityControls	Simple dialog to change Opacity Settings (1 = opaque, 0 = transparent).
JDialogOpen	Dialog to get user input, then call the algorithm.
JDialogOrder	Confirmation dialog used in AFNI to decide whether to reorder the image to dicom order.
JDialogOrientMatrix	Dialog used to determine how the transformation matrix should be adjusted to account for different coordinate systems.
JDialogOverlay	Title: JDialogOverlay
JDialogPadImages	Creates the dialog to pad blank images to an active image.
JDialogPaintGrow	Dialog to get the upper and lower bounds for the region grow used by the paint functions.
JDialogPaintRGBComponents	Simple dialog to change Opacity Settings (1 = opaque, 0 = transparent).
JDialogPaintVasculature	Dialog to facilitate the painting of a region of an image (such as the vascualture in a liver mip).
JDialogParticleAnalysisNew	Dialog to get user input, then call the algorithm.
JDialogPbBoundaryDetection	DOCUMENT ME!
JDialogPhaseCongruency
JDialogPhasePreservingDenoising
JDialogPointArea	Dialog that will call AlgorithmPointArea in order to calculate the average intensity through a volume around an area with a given size (x by y) at a given point.
JDialogPolygonToCircle	Dialog to get user input of 3 or more counterclockwise ordered polygon points for polygon to circle conformal mapping.
JDialogPolygonToRectangle	Dialog to get user input of counterclockwise ordered polygon points, followed by selecting 4 of these vertices in counterclockwise order to be the corners of the rectangle.
JDialogPowerPaint	Dialog box for the paint power tools: morphology operations, object delete, etc.
JDialogPowerWatershed	DOCUMENT ME!
JDialogPrincipalComponents	Dialog to create a filtered image using only selected principal components in the reconstruction and also to create an averaged image slice by simple averaging of the reconstructed image.
JDialogPyWavelets
JDialogQuantify	Dialog to get user input, then call the algorithm.
JDialogQuantifyMask	Simple dialog to change the number of colors in the histogram LUT.
JDialogRandomizeSliceOrder	Dialog to call the randomize the order of 3D dataset.
JDialogRawIO	Simple dialog to indicate type, dimensionality, of a raw image or image with a fixed length header in front of the image data.
JDialogRecordLUT	DOCUMENT ME!
JDialogRegionMergingViaBoundaryMelting	DOCUMENT ME!
JDialogRegionsFromPartialBorders	DOCUMENT ME!
JDialogRegistrationBSpline	This class is used to display the options to the user for performing 2D, 3D, and 2.5D B-Spline registration.
JDialogRegistrationBSpline.Controls	Private class which holds dialog controls associated with the values in the AlgorithmRegBSpline.Options class for a "pass" of registration.
JDialogRegistrationChamfer	Dialog to get user input, then call algorithmChamfer.
JDialogRegistrationLeastSquares	Dialog to get user input, then call algorithmRegLeastSquares.
JDialogRegistrationOAR25D	Dialog to get user input, then call AlgorithmRegOAR25D.
JDialogRegistrationOAR2D	Dialog to get user input, then call AlgorithmRegOAR2D.
JDialogRegistrationOAR35D	Dialog to get user input, then call AlgorithmRegOAR35D.
JDialogRegistrationOAR3D	Dialog to get user input, then call algorithm RegistrationOAR3D.
JDialogRegistrationSIFT3D	Dialog to get user input, then call algorithmRegLeastSquares.
JDialogRegistrationTPSpline	Dialog to get user input Selected image is match image, the image that gets transformed until it is registered to the base image.
JDialogRegistrationValidation	Dialog to get user input, then call algorithmRegValidation.
JDialogRegPatientPos	Dialog to get user input, then call algorithmRegPatientPos.
JDialogRegularizedIsotropicDiffusion	Dialog to get user input, then call a specified diffusion algorithm.
JDialogRegVOILandmark	Dialog to register Kidney images, same spacial location, over time.
JDialogRemovePlugin	Simple dialog to remove a plugin.
JDialogRemoveSlices	Creates the dialog to remove separate slices in an image.
JDialogRemoveTSlices	Creates the dialog to remove separate time slices in an image.
JDialogReorient	Dialog box for basic image processing tools
JDialogReplaceBlankSlicesWithAverages	Dialog to replace the blank slices in 3D images with averages.
JDialogReplaceSlice	Title:
JDialogReplaceValue	Dialog which replaces all occurances of one value in an image with another value.
JDialogReslice	Dialog to get interpolation choice, then call reslice algorithm.
JDialogRGBConcat	Dialog to choose images, then call the RGBConcat algorithm.
JDialogRGBtoGray	DOCUMENT ME!
JDialogRGBtoGrays	Dialog to call a algorithm to convert an RGB to a grayscale images.
JDialogRGBtoHSB	Dialog to separate RGB channels into grayscale Hue, Saturation, and Brightness channels.
JDialogRotate	Dialog to call the image rotate.
JDialogRuleBasedContrastEnhancement	DOCUMENT ME!
JDialogRunScriptController
JDialogRunScriptModel
JDialogRunScriptView
JDialogSaveDicom	Simple dialog to tell the program important information necessary for saving the DICOM file.
JDialogSaveMergedVOIs	Simple dialog to save the 3 VOIs ( Sagittal, Coronal, Axial ) for each view, and merge them into one cloud points.
JDialogSaveMinc	Simple dialog to tell the program important information about the MINC file.
JDialogSaveMincVersionChoice	Confirmation Dialog giving user the choice to write an analyze file , interfile file, or a nifti file.
JDialogSaveSlices	Simple dialog to indicate which slices should be saved.
JDialogSaveVistaParams
JDialogScaleSaliency
JDialogSCDSegmentation	Dialog to get user input, then call the algorithm.
JDialogScriptableBase	All scriptable dialogs should inherit from this abstract class.
JDialogScriptableTransform	Dialog to get user input, then call algorithmTransform.
JDialogScriptRecorder	This is the "record script" dialog.
JDialogSelectChannelSequence	The purpose of this dialog is to allow the user to rearrange the channel order of an image before it is loaded.
JDialogSelectDICOMColumnHeaders	DOCUMENT ME!
JDialogSequentialScanningWatershed	Dialog to get user input, then call the algorithm.
JDialogServer	Simple dialog to set certain values for the new or edited server or destination.
JDialogShortcutEditor	DOCUMENT ME!
JDialogShortestPathWatershed	Dialog to get user input, then call the algorithm.
JDialogShowCosts	Calculate costs for various voxel similarity cost functions that are used in registration and output them to the data window.
JDialogSIFT	Dialog to get user input, then call the algorithm.
JDialogSIFTImageSimilarity
JDialogSimulatedExposureFusion	DOCUMENT ME!
JDialogSingleMRIImageSNR	Dialog to get user input signal 1 VOI, optional signal 2 VOI, background VOI or signal to use fuzzy c means to separate all pixels into signal and background and number of NMR receivers needed for MRI image SNR calculation.
JDialogSkeletonize	Dialog to get user input, then call the algorithm.
JDialogSlantTransform	Dialog to get user input, then call the algorithm.
JDialogSliceAveraging	Dialog to get user input, then call the algorithm.
JDialogSM2	Dialog to get user input for 3 parameter dynamic (contrast) enhanced MRI model or SM2 model
JDialogSmoothMesh	User-interface for smoothing the ModelTriangleMesh surfaces.
JDialogSnake	Dialog to get user input, then call the algorithm.
JDialogSobel	Dialog to get user input, then call the algorithm.
JDialogSpectralClustering
JDialogSphereGeneration	Dialog to create an image with randomly spaced, aggregated, regular or uniform, or constrained spheres of the same size
JDialogSplitAndMergeWatershed	Dialog to get user input, then call the algorithm.
JDialogStandardDeviationThreshold	The Standard Deviation Threshold works by first having an active VOI in which the standard deviation and other statistics are calculated.
JDialogSubsample	Dialog for subsampling a 2D or 3D or 4D image by 2, 4, or 8.
JDialogSubset	Creates the dialog to create a 3D subset image from a 4D image.
JDialogSubtractVOI	Dialog to get user input, then call the algorithm.
JDialogSurfaceReconstruction
JDialogSwap34	Dialog to call the AlgorithmSwap34 to delete the current image and create a new image with the third and fourth dimensions swapped.
JDialogSwapDims	Dialog to call the AlgorithmSwap34 to delete the current image and create a new image with the third and fourth dimensions swapped.
JDialogSwapSlicesVolumes	Creates the dialog for swapping slices/volumes.
JDialogSWI	This class displays a basic dialog for a MIPAV plug-in.
JDialogSymmetricNearestNeighbor
JDialogTalairach	Dialog to enter points for creating an Talaraich image.
JDialogTalairachTransform	Interface for the TalairachTransform plugin.
JDialogTamuraTexture	Dialog to get user input, then call the algorithm.
JDialogText	This is simple text dialog that displays in the center of the screen.
JDialogTextGE	This is simple text dialog that displays in the center of the screen.
JDialogTextGE4X	This is simple text dialog that displays in the center of the screen.
JDialogTextureAnalysis
JDialogTextureSegmentation	DOCUMENT ME!
JDialogThinning2D	DOCUMENT ME!
JDialogThreshold	Dialog to get user input, then call the algorithm.
JDialogThresholdLUT	Dialog is used by the ViewJFrameHistoLUT frame.
JDialogThresholdRGB	Title: JDialogThresholdRGB
JDialogTiltCorrection	Dialog to get user input, then call the algorithm.
JDialogTimeFitting
JDialogTLRC	Dialog to enter points for creating an Talaraich image.
JDialogTopHat	Dialog to get user input, then call the algorithm.
JDialogTransformBSpline	DOCUMENT ME!
JDialogTransformVOI
JDialogTreMethod
JDialogTreT1
JDialogTreT2	The dialog for the calculation of Tre methods.
JDialogTriFrameLinker	Dialog to get user input, then call the algorithm.
JDialogTriImageTransformation	Dialog to transform an image in the tri planar view based on a bounding box.
JDialogTrilateralFilter
JDialogTrim	Simple dialog to change trim parameters.
JDialogTwoMRIImagesSNR	Dialog to get user input two MRI image SNR Algorithms are executed in their own thread.
JDialogUltErode	Dialog to get user input, then call the algorithm.
JDialogUninstallPlugin	Simple dialog to uninstall a plugin.
JDialogUnionFindComponentLabelling	Dialog to get user input, then call the algorithm.
JDialogUnionFindWatershed	Dialog to get user input, then call the algorithm.
JDialogUnknownIO	Simple dialog to indicate type of image when the program doesn't recognize the name.
JDialogUnsharpMask	Dialog to get user input, then call the algorithm.
JDialogVABRA
JDialogVesselEnhancement	DOCUMENT ME!
JDialogVOIBoolean	Dialog to use difference, intersection, exclusive or, or intersection on 2 VOIs
JDialogVOIExtraction	Dialog to call the VOI extraction.
JDialogVOIHausdorffDistance
JDialogVOILogicalOperations
JDialogVOIShapeInterpolation
JDialogVOISplitter	Title:
JDialogVOIStatistics	Dialog for calculating statistics of a (set of) Volumes of Interest.
JDialogVOIStats	DOCUMENT ME!
JDialogWalshHadamardTransform	Dialog to get user input, then call the algorithm.
JDialogWatershed	Dialog to get user input, then call the algorithm.
JDialogWaveletFuse	Dialog to get user input, then call the algorithm.
JDialogWaveletMultiscaleProducts	DOCUMENT ME!
JDialogWaveletThreshold	DOCUMENT ME!
JDialogWinLevel	Dialog creates 2 sliders which adjust the level and window of an image.
JDialogZoom	This is a custom swing dialog that sets variables for zooming in and out.
JFrameRegistrationMosaic	JFrameRegistrationMosaic is a window/gui that enables the user to manually align two images with the mouse and then call the AlgorithmRegOAR2D registration algorithm to create a mosaic image with the two aligned images.
JPanelPixelExclusionSelector	A dialog to permits choosing a range (positive or negative, and floating-point) of values with the intention of the selection indicating a range of values.
MipavActionMetadata
MTryJistHook	This class is an example class for tying existing plugins into the JIST interface.
MultiPaintAutoSave	DOCUMENT ME!
MyXMLHandler	Handle events generated while parsing the XML file.
PaintAutoSave	DOCUMENT ME!
ScriptImage
ScriptTreeNode	Class used as a DefaultMutableTreeNode, except it stores a default name that can be recalled at any time if the users deletes the image/voi.
ScriptVOI
XMLErrorHandler	Error handler to report errors and warnings from the XML parser.

Enum Summary

Enum	Description
ActionMetadata.ImageRequirements
AlgorithmTreParams.FieldStrength	Specifies the magnetic field strength of the scanner used.
AlgorithmTreParams.InversionType	Specifies the inversion method used for the scan.
AlgorithmTreParams.ScannerType	Designates the brand of scanner used for processing.
AlgorithmTreParams.Threshold	A three way boolean operator to designate the thresholding option used.
ExitStatus	These enumerations are used by the GuiBuilder to indicate the pre-processing results of user entry fields for the user interface.
JDialogCaptureScreen.WindowProperties
JDialogMemoryAllocation.VMConfigType
JDialogSwapSlicesVolumes.SwapMode
JDialogZoom.ZoomMode
JPanelPixelExclusionSelector.RangeType