Description

ClassificationCmdApps.cmake

Default.cmake

PhenotypingRelease.cmake

WorkbenchRelease.cmake

Findlz4.cmake

PackageDepends/

MITK_Boost_Config.cmake

MITK_Vigra_Config.cmake

MITK_lz4_Config.cmake

ClassificationCmdApps.cmake

Whitelists/

FlowBenchSegmentation.cmake

manifest.xml.in

mitkFunctionCreateBlueBerryApplication.cmake

mitkFunctionCreateModule.cmake

mitkFunctionCreatePlugin.cmake

mitkFunctionGetLibrarySearchPaths.cmake

mitkSwigAddLibraryDependencies.cmake

mitkTestDriverFiles.cmake.in

CMakeExternals/

ACVD.cmake

Boost.cmake

DCMQI.cmake

ExternalProjectList.cmake

ITK.cmake

MatchPoint.cmake

Poco.cmake

VTK.cmake

Vigra.cmake

Vigra.patch

ZLIB.cmake

lz4.cmake

nlohmann_json.cmake

MITKPluginManualsList.dox

Documentation/

Doxygen/

2-UserManual/

MiniApps.dox

3-DeveloperManual/

Application/

DevelopmentApplication.dox

ExtensionPointReference.dox

Concepts/

Logging.dox

DeveloperManualPortal.dox

Starting/

GettingToKnow/

CMakeFAQ.dox

SettingUpMITK/

BuildInstructions.dox

4-API/

doxygen_developers_guide.conf.in

doxygen_plugin_manual.conf.in

doxygen_users_guide.conf.in

Examples/

mitkExampleIOMimeTypes.cpp

FirstSteps/

NewModule/

autoload/

IO/

	MitkLog/
	MbiLog/

MitkLogExample.cpp

SimpleRenderWindowView.cpp

Plugins/

org.mitk.example.gui.customviewer.views/

src/

internal/

SimpleRenderWindowView.h

org.mitk.example.gui.customviewer/

QmitkSimpleExampleView.cpp

org.mitk.example.gui.imaging/

src/

internal/

simpleexample/

QtFreeRender/

QtFreeRender.cpp

Tutorial/

Step1/

Step1.cpp

Step2/

Step2.cpp

Modules/

Annotation/

src/

mitkLogoAnnotation.cpp

mitkTextAnnotation2D.cpp

AppUtil/

src/

QmitkSafeApplication.cpp

QmitkSafeNotify.h

mitkBaseApplication.cpp

mitkProvisioningInfo.cpp

BoundingShape/

src/

DataManagement/

mitkBoundingShapeUtil.cpp

CEST/

autoload/

IO/

mitkCESTIOMimeTypes.cpp

mitkGeneralizedLinearModel.h

CameraCalibration/

mitkTransform.h

Classification/

CLCore/

CLImportanceWeighting

mitkLRDensityEstimation.h

mitkLinkModels.h

src

mitkDistModels.cpp

mitkGeneralizedLinearModel.cpp

mitkLRDensityEstimation.cpp

mitkLibSVMClassifier.h

mitkLibSVMClassifier.cpp

mitkLibSVMClassifierTest.cpp

CLMRUtilities/

mitkGlobalFeaturesTest.cpp

mitkSmoothedClassProbabilitesTest.cpp

CLMiniApps/

CL2Dto3DImage.cpp

CLBrainMask.cpp

CLDicom2Nrrd.cpp

CLGlobalImageFeatures.cpp

CLImageCropper.cpp

CLLungSegmentation.cpp

CLMatchPointReg.cpp

CLMultiForestPrediction.cpp

CLNrrdToPoly.cpp

CLOverlayRoiCenterOfMass.cpp

CLPlanarFigureToNrrd.cpp

CLPointSetToSegmentation.cpp

CLPolyToNrrd.cpp

CLPurfVoxelClassification.cpp

CLRandomSampling.cpp

CLRemoveEmptyVoxels.cpp

CLResampleImageToReference.cpp

CLScreenshot.cpp

CLSimpleVoxelClassification.cpp

CLSkullMask.cpp

CLStaple.cpp

CLSurWeighting.cpp

CLVoxelClassification.cpp

CLVoxelFeatures.cpp

CLWeighting.cpp

ManualSegmentationEvaluation.cpp

NativeHeadCTSegmentation.cpp

RandomForestTraining.cpp

XRaxSimulationFromCT.cpp

CLUtilities/

include/

itkEnhancedScalarImageToNeighbourhoodGreyLevelDifferenceMatrixFilter.hxx

itkEnhancedScalarImageToSizeZoneMatrixFilter.hxx

test/

mitkGlobalFeaturesTest.cpp

mitkSmoothedClassProbabilitesTest.cpp

itkHessianMatrixEigenvalueImageFilter.h

itkStructureTensorEigenvalueImageFilter.h

mitkAdditionalRFData.h

mitkDummyLsetReader.h

mitkImpurityLoss.h

mitkLinearSplitting.h

mitkVigraRandomForestClassifier.h

mitkVigraRandomForestClassifierSerializer.h

src

Algorithm

itkHessianMatrixEigenvalueImageFilter.cpp

itkStructureTensorEigenvalueImageFilter.cpp

Classifier

mitkPURFClassifier.cpp

mitkVigraRandomForestClassifier.cpp

mitkDummyLsetReader.cpp

mitkRandomForestIO.cpp

mitkVigraRandomForestClassifierSerializer.cpp

Splitter

mitkAdditionalRFData.cpp

mitkImpurityLoss.cpp

mitkLinearSplitting.cpp

mitkPUImpurityLoss.cpp

mitkThresholdSplit.cpp

mitkModuleActivator.cpp

test

mitkVigraRandomForestTest.cpp

mitkDataCollection.cpp

mitkDataCollection.h

mitkDataCollectionUtility.cpp

mitkDataCollectionUtility.h

Iterators

mitkDataCollectionImageIterator.cxx

mitkDataCollectionImageIterator.h

mitkDataCollectionSingleImageIterator.cxx

mitkDataCollectionSingleImageIterator.h

mitkDataCollectionVectorImageIterator.cxx

mitkDataCollectionVectorImageIterator.h

ReaderWriter

mitkCollectionReader.cpp

mitkCollectionReader.h

mitkCollectionWriter.cpp

mitkCollectionWriter.h

Testing

mitKnnClassificationTest.cpp

mitkDataCollectionBySuffix.cpp

mitkDataCollectionFromXMLTest.cpp

mitkDataCollectionImageIteratorTest.cpp

mitkDataCollectionReaderWriterTest.cpp

mitkDataCollectionTest.cpp

mitkGenerateFeatureVectFromImageTest.cpp

mitkSherwoodTest.cpp

textCollection.xml

Utilities

mitkCollectionStatistic.cpp

mitkCollectionStatistic.h

mitkCostingStatistic.cpp

mitkCostingStatistic.h

mitkDataCollectionUtilities.cpp

mitkDataCollectionUtilities.h

mitkClassificationMiniAppsPortalPage.dox

Core/

mitkInteractionTestHelper.cpp

TestingHelper/

src/

include/

mitkBaseController.h

mitkBaseRenderer.h

mitkCommon.h

mitkCoreObjectFactoryBase.h

mitkCoreServices.h

mitkEqual.h

mitkException.h

mitkExceptionMacro.h

mitkInteractionConst.h

mitkLog.h

mitkLogBackend.h

mitkLogMacros.h

mitkMessage.h

mitkRenderingManager.h

mitkSliceNavigationController.h

mitkTimeNavigationController.h

src/

Controllers/

mitkBaseController.cpp

mitkCallbackFromGUIThread.cpp

mitkCameraRotationController.cpp

mitkCrosshairManager.cpp

mitkRenderingManager.cpp

mitkSliceNavigationController.cpp

mitkSliceNavigationHelper.cpp

mitkTimeNavigationController.cpp

mitkApplicationCursor.cpp

DataManagement/

mitkPlaneOperation.cpp

mitkSlicedGeometry3D.cpp

mitkFileReaderWriterBase.cpp

IO/

mitkIOMimeTypes.cpp

mitkItkLoggingAdapter.cpp

mitkLocaleSwitch.cpp

mitkLog.cpp

	mitkLogBackend.cpp
	mitkLog.cpp

mitkMimeTypeProvider.cpp

mitkPixelType.cpp

mitkStandardFileLocations.cpp

mitkVtkLoggingAdapter.cpp

mitkXMLPreferencesStorage.cpp

mitkDisplayActionEventBroadcast.cpp

Interactions/

mitkDisplayActionEventFunctions.cpp

Rendering/

mitkBaseRenderer.cpp

mitkPointSetVtkMapper3D.cpp

mitkVideoRecorder.cpp

mitkVtkEventProvider.cpp

vtkMitkLevelWindowFilter.cpp

test/

mitkBaseGeometryTest.cpp

mitkExtractSliceFilterTest.cpp

mitkGeometry3DTest.cpp

mitkLogTest.cpp

mitkPixelTypeTest.cpp

mitkPointTypeConversionTest.cpp

mitkPropertyTest.cpp

mitkSliceNavigationControllerTest.cpp

mitkUIDGeneratorTest.cpp

MicroServices_Debugging.dox

CppMicroServices/

core/

doc/

doxygen/

include/

usLDAPFilter.h

doc/

doxygen.conf.in

DICOM/

src/

mitkDICOMTag.cpp

mitkGantryTiltInformation.cpp

mitkDICOMPMIOMimeTypes.cpp

DICOMPM/

autoload/

DICOMPMIO/

QmitkDicomExternalDataWidget.cpp

DICOMUI/

src/

QmitkDicomLocalStorageWidget.cpp

DataTypesExt/

mitkNavigationDataToPointSetFilter.cpp

IGT/

Algorithms/

TrackingDevices/

mitkClaronInterfaceStub.h

mitkOptitrackTrackingDevice.h

mitkVirtualTrackingDevice.cpp

mitkVirtualTrackingDevice.h

IGTBase/

include/

mitkIGTException.h

mitkIGTHardwareException.h

mitkIGTIOException.h

IGTUI/

Qmitk/

QmitkNDIConfigurationWidget.cpp

ImageStatistics/

mitkImageStatisticsHotspotTest.cpp

Testing/

mitkHotspotMaskGenerator.cpp

mitkMaskUtilities.tpp

mitkLogBackendCout.cpp

	Log/
	Classification/

	include/	mitkLogLevel.h/
	CLVigraRandomForest/	src/	Splitter/


	mitkAdditionalRFData.cpp

	src/	mitkLogMessage.cpp/
	DataCollection/	Testing/


	mitkDataCollectionReaderWriterTest.cpp

MatchPointRegistration/

mitkMultiModalRigidHeadNeckRegistrationAlgorithm.h

algorithms/

mitkMultiModalRigidHeadNeckRegistrationAlgorithm.profile

mitkMultiModalRigidSlabbedHeadRegistrationAlgorithm.h

mitkMultiModalRigidSlabbedHeadRegistrationAlgorithm.profile

cmdapps/

MapImageMiniApp.cpp

MatchImageMiniApp.cpp

StitchImagesMiniApp.cpp

deployment/

include/

mitkImageMappingHelper.h

mitkMAPRegistrationWrapper.h

mitkImageMappingHelper.cpp

src/

Helper/

mitkMAPRegistrationWrapper.cpp

	MatchPointRegistration/	deployment/
	Core/	include/

	mitkMultiModalRigid_headNeck.cpp
	mitkLogMacros.h

	mitkMultiModalRigid_slabbedHead.cpp
	mitkLogMacros.h

QmitkAlgorithmListModel.h

MatchPointRegistrationUI/

Qmitk/

QmitkMapPropertyDelegate.h

mitkModelFitModelsActivator.cpp

ModelFit/

autoload/

Models/

mitkExponentialSaturationModelFactory.h

include/

mitkExponentialSaturationModelParameterizer.h

mitkIModelProvider.h

mitkModelTestFixture.h

mitkSumOfSquaredDifferencesFitCostFunction.cpp

src/

Functors/

mitkExponentialSaturationModel.cpp

Models/

mitkExponentialSaturationModelFactory.cpp

mitkExponentialSaturationModelParameterizer.cpp

test/

mitkExpDecayOffsetModelTest.cpp

mitkLinearModelTest.cpp

mitkT2DecayModelTest.cpp

	ModelFit/	include/
	Pharmacokinetics/	include/

	mitkExponentialSaturationModel.h
	mitkThreeStepLinearModel.h

mitkDICOMSegIOMimeTypes.cpp

ModuleList.cmake

Multilabel/

autoload/

DICOMSegIO/

mitkDICOMSegmentationIO.cpp

mitkMultilabelIOMimeTypes.cpp

IO/

mitkLabelSetImage.cpp

mitkLabelSetImage.h

mitkConvertToConcentrationTurboFlashFunctor.h

OpenCL/

mitkOclDataSet.cpp

mitkOclFilter.cpp

mitkOclImage.cpp

mitkOclImageFormats.h

mitkOclUtils.cpp

OpenIGTLink/

mitkIGTLMessageSource.h

Pharmacokinetics/

include/

mitkDescriptivePharmacokineticBrixModel.h

mitkThreeStepLinearModel.h

mitkTwoStepLinearModel.h

mitkAreaUnderFirstMomentDescriptionParameter.cpp

src/

DescriptionParameters/

mitkAreaUnderTheCurveDescriptionParameter.cpp

mitkMeanResidenceTimeDescriptionParameter.cpp

mitkThreeStepLinearModel.cpp

Models/

mitkThreeStepLinearModelParameterizer.cpp

mitkTwoStepLinearModel.cpp

mitkTwoStepLinearModelTest.cpp

mitkTwoTissueCompartmentFDGModel.cpp

mitkTwoTissueCompartmentModel.cpp

ConvertToConcentrationTest.cpp

test/

mitkConvertSignalToConcentrationTest.cpp

mitkCurveDescriptiveParametersTest.cpp

mitkDescriptivePharmacokineticBrixModelTest.cpp

mitkExtendedOneTissueCompartmentModelTest.cpp

mitkExtendedToftsModelTest.cpp

mitkOneTissueCompartmentModelTest.cpp

mitkStandardToftsModelTest.cpp

mitkThreeStepLinearModelTest.cpp

mitkTwoCompartmentExchangeModelTest.cpp

mitkTwoStepLinearModelTest.cpp

mitkTwoTissueCompartmentFDGModelTest.cpp

mitkTwoTissueCompartmentModelTest.cpp

QtWidgets/

include/

QmitkMxNMultiWidget.h

QmitkStdMultiWidget.h

QmitkMultiWidgetLayoutManager.cpp

src/

QmitkMultiWidgetLayoutSelectionWidget.cpp

QmitkMxNMultiWidget.cpp

QmitkRenderWindow.cpp

QmitkRenderWindowMenu.cpp

QmitkRenderWindowUtilityWidget.cpp

QmitkRenderWindowWidget.cpp

QmitkStdMultiWidget.cpp

QmitkStyleManager.cpp

mitkDataStorageInspectorGenerator.cpp

test/

QmitkThreadedLogTest.cpp

QtWidgetsExt/

src/

QmitkSliceWidget.cpp

mitkContourModelSetToImageFilter.cpp

RESTService/

src/

mitkRESTManager.cpp

Segmentation/

Algorithms/

mitkContourModelSetToImageFilter.h

mitkDiffSliceOperationApplier.cpp

mitkSegmentationHelper.cpp

mitkVtkImageOverwrite.h

Controllers/

mitkToolManager.cpp

mitkToolManager.h

mitkBinaryThresholdBaseTool.cpp

Interactions/

mitkBinaryThresholdBaseTool.h

mitkEditableContourTool.cpp

mitkEditableContourTool.h

mitkLiveWireTool2D.cpp

mitkOtsuTool3D.cpp

mitkOtsuTool3D.h

mitkPickingTool.cpp

mitkSegTool2D.cpp

mitkSegTool2D.h

mitkSegWithPreviewTool.cpp

mitkSegWithPreviewTool.h

mitkTotalSegmentatorTool.cpp

mitknnUnetTool.cpp

mitknnUnetTool.h

Resources/

Interactions/

EditableContourTool.xml

mitkOverwriteSliceFilterObliquePlaneTest.cpp

Testing/

mitkOverwriteSliceFilterTest.cpp

cmdapps

ContoursToImage.cpp

QmitkEditableContourToolGUIBase.cpp

SegmentationUI/

Qmitk/

QmitkEditableContourToolGUIBase.h

QmitkFindSegmentationTaskDialog.cpp

QmitkFindSegmentationTaskDialog.h

QmitkFindSegmentationTaskDialog.ui

QmitkMultiLabelInspector.cpp

QmitkMultiLabelInspectorControls.ui

QmitkMultiLabelTreeModel.cpp

QmitkSegmentationTaskListWidget.cpp

QmitkSegmentationTaskListWidget.h

QmitkSegmentationTaskListWidget.ui

QmitkSetupVirtualEnvUtil.cpp

QmitkSetupVirtualEnvUtil.h

QmitkSlicesInterpolator.cpp

QmitkSlicesInterpolator.h

QmitkTotalSegmentatorToolGUI.cpp

QmitkTotalSegmentatorToolGUI.h

QmitknnUNetToolGUI.cpp

QmitknnUNetToolGUIControls.ui

QmitkBooleanOperationsWidget.cpp

SegmentationUtilities/

QmitkBooleanOperationsWidget.h

QmitkContourModelToImageWidget.cpp

QmitkContourModelToImageWidget.h

QmitkImageMaskingWidget.cpp

QmitkImageMaskingWidget.h

QmitkMorphologicalOperationsWidget.cpp

QmitkMorphologicalOperationsWidget.h

QmitkSegmentationUtilityWidget.cpp

QmitkSegmentationUtilityWidget.h

QmitkSurfaceToImageWidget.cpp

QmitkSurfaceToImageWidget.h

resources/

SegmentationUI.qrc

icon_find.svg

mitkSurfaceInterpolationControllerTest.cpp

SurfaceInterpolation/

Testing/

mitkCreateDistanceImageFromSurfaceFilter.cpp

mitkSurfaceInterpolationController.cpp

mitkSurfaceInterpolationController.h

ToFProcessing/

Testing/

mitkToFProcessingCommonTest.cpp

	Modules/	Log/
	Utilities/	mbilog/

	mitkLogConfig.h.in
	mbilogLogMessage.cpp

	Modules/	Log/	src/
		Utilities/	mbilog/

	mitkLog.cpp
	mbilog.cpp

	mitkLogBackendBase.cpp
	mbilogBackendBase.cpp

	mitkLogBackendText.cpp
	mbilogTextBackendBase.cpp

	mitkLogDictionary.h
	mbilogTextDictionary.h

Plugins/

PluginList.cmake

org.blueberry.core.runtime/

src/

berryIAdapterFactory.h

berryLog.h

internal/

berryLogImpl.cpp

berryQtPlatformLogModel.cpp

org.blueberry.ui.qt.log/

src/

internal/

berryQtPlatformLogModel.h

org.blueberry.ui.qt/

src/

berryIWorkbenchWindow.h

berryWorkbenchPart.h

mitkInputDeviceDescriptor.cpp

mitkCoreExtActivator.cpp

mitkCoreExtActivator.h

mitkInputDeviceDescriptor.h

mitkInputDeviceRegistry.cpp

mitkInputDeviceRegistry.h

mitkCoreExtConstants.cpp

mitkCoreExtConstants.h

mitkIInputDevice.h

mitkIInputDeviceDescriptor.h

mitkIInputDeviceRegistry.h

mitkInputDeviceDescriptor.h

org.mitk.core.services/

src/

internal/

mitkPluginActivator.cpp

org.mitk.gui.common/

src/

mitkIRenderWindowPart.h

mitkIRenderingManager.cpp

mitkIRenderingManager.h

QmitkDataNodeResetGeometryAction.cpp

org.mitk.gui.qt.application/

src/

QmitkPreferencesDialog.cpp

QmitkBasicImageProcessingView.cpp

org.mitk.gui.qt.basicimageprocessing/

src/

internal/

org.mitk.gui.qt.classificationsegmentation

ClassificationSegmentation.qrc

plugin.xml

resources

ClassificationRegionGrow.cpp

ClassificationRegionGrow.h

ClassificationRegionGrowControls.ui

ClassificationSegmentation.cpp

ClassificationSegmentation.h

ClassificationSegmentationControls.ui

org_mitk_gui_qt_classificationregiongrow_Activator.cpp

org_mitk_gui_qt_classificationregiongrow_Activator.h

org_mitk_gui_qt_classificationsegmentation_Activator.cpp

org_mitk_gui_qt_classificationsegmentation_Activator.h

org.mitk.gui.qt.common/

src/

QmitkAbstractRenderEditor.cpp

QmitkAbstractRenderEditor.h

QmitkAbstractView.cpp

QmitkSliceNavigationListener.cpp

QmitkSliceNavigationListener.h

internal/

QmitkCommonActivator.cpp

org.mitk.gui.qt.dicombrowser/

src/

internal/

DicomEventHandler.cpp

QmitkDicomDirectoryListener.cpp

QmitkStoreSCPLauncher.cpp

QmitkDicomInspectorView.cpp

org.mitk.gui.qt.dicominspector/

src/

internal/

QmitkDicomInspectorView.h

InteractionEventRecorder.cpp

org.mitk.gui.qt.eventrecorder/

src/

internal/

org.mitk.gui.qt.ext/

plugin.xml

src/

internal/

QmitkCommonExtPlugin.cpp

QmitkInputDevicesPrefPage.cpp

QmitkInputDevicesPrefPage.h

QmitkExtApplicationPlugin.cpp

org.mitk.gui.qt.extapplication/

src/

internal/

GenericDataFittingView.cpp

org.mitk.gui.qt.fit.genericfitting/

src/

internal/

ModelFitInspectorView.cpp

org.mitk.gui.qt.fit.inspector/

src/

internal/

QmitkIGTTrackingSemiAutomaticMeasurementView.cpp

org.mitk.gui.qt.igt.app.hummelprotocolmeasurements/

src/

internal/

org.mitk.gui.qt.igt.app.ultrasoundtrackingnavigation/

src/

internal/

IO/

mitkUSNavigationLoggingBackend.cpp

mitkUSNavigationLoggingBackend.h

QmitkUSNavigationMarkerPlacement.cpp

org.mitk.gui.qt.igttracking/

src/

internal/

QmitkMITKIGTTrackingToolboxView.cpp

org.mitk.gui.qt.imagecropper/

src/

internal/

QmitkImageCropperView.cpp

QmitkImageNavigatorView.cpp

org.mitk.gui.qt.imagenavigator/

src/

internal/

org.mitk.gui.qt.matchpoint.framereg/

documentation/

UserManual/

Manual.dox

QmitkMatchPointMapper.cpp

org.mitk.gui.qt.matchpoint.mapper/

src/

internal/

QmitkMitkWorkbenchIntroPlugin.cpp

org.mitk.gui.qt.mitkworkbench.intro/

src/

internal/

org.mitk.gui.qt.moviemaker/

src/

internal/

QmitkMovieMakerView.cpp

QmitkOrbitAnimationItem.cpp

QmitkSliceAnimationItem.cpp

QmitkSliceAnimationWidget.cpp

QmitkTimeSliceAnimationItem.cpp

QmitkTimeSliceAnimationWidget.cpp

org.mitk.gui.qt.pharmacokinetics.curvedescriptor/

documentation/

UserManual/

Manual.dox

QmitkPreprocessingResamplingView.cpp

org.mitk.gui.qt.preprocessing.resampling/

src/

internal/

org.mitk.gui.qt.radiomics

QmitkPhenotypingPortalPage.dox

documentation

UserManual

doxygen

QmitkRadiomicsArithmetricView.dox

QmitkRadiomicsMaskProcessingView.dox

QmitkRadiomicsStatisticView.dox

QmitkRadiomicsTransformationView.dox

RadiomicsMaskProcessingView_01_Overview.png

RadiomicsStatisticView_01_Overview.png

RadiomicsStatisticView_02_Parameter.png

RadiomicsTransformationView_01_Overview.png

RadiomicsTransformationView_02_MultiResolution.png

RadiomicsTransformationView_03_Resample.png

RadiomicsTransformationView_05_LoG.png

modules.dox

tutorial_gui

RadiomicsTutorial_GUI_00_PortalPage.dox

RadiomicsTutorial_GUI_01_Basic.dox

RadiomicsTutorial_GUI_02_Segmenting.dox

RadiomicsTutorial_GUI_03_Preprocessing.dox

RadiomicsTutorial_GUI_04_FeatureCalculating.dox

RadiomicsTutorial_GUI_Step1_01_Overview.png

RadiomicsTutorial_GUI_Step2_01_Preparation.png

RadiomicsTutorial_GUI_Step2_02_StartSegmentation.png

RadiomicsTutorial_GUI_Step3_01_DetailView.png

RadiomicsTutorial_GUI_Step3_02_FinishedPreprocessing.png