Here is a list of all files with brief descriptions:

[detail level 1234]

▼ Applications
▼ DiffusionModels
ComputeSHCoefficientsOfDWIFromSymmetricTensor.cxx
MeanDiffusivityEstimator.cxx
ODFNormalization.cxx
SHCoefficientsFit.cxx	Created "10-06-2016
SHCoefficientsPower.cxx	Created "02-06-2016
SHCoefficientsRotate.cxx
SHCoefficientsToGFA.cxx
SHCoefficientsToSphericalFunctionSamples.cxx	Created "05-11-2013
SPFToODF.cxx
SPFToProfile.cxx
SPFToScalarMap.cxx	Calculate RTO map from SPF coefficients Created "03-18-2014
SphereTessellator.cxx
SphericalPolarFourierImaging.cxx
TensorFormatConverter.cxx	Created "06-27-2016
▼ DWIProcessing
CorrectBValues.cxx
DWIMultipleShellSplit.cxx
DWINoiseGenerator.cxx
DWIPreprocess.cxx
DWISimulator.cxx
DWISingleVoxelSimulator.cxx
▼ SamplingScheme
OrientationStatistics.cxx
SamplingSchemeDistance.cxx
SamplingSchemeQSpace1OptEstimation.cxx	Created "01-17-2017
SamplingSchemeQSpaceIMOCEstimation.cxx
SamplingSchemeQSpaceIncrementalEstimation.cxx
SamplingSchemeQSpaceRandomEstimation.cxx	Created "01-17-2017
▼ Utilities
4DImageMath.cxx	Created "07-12-2016
4DToVectorImageConverter.cxx
ImageInfo.cxx
ImageMultiplication.cxx
PrintImage.cxx	Created "10-11-2013
TextFileOperator.cxx
VectorImageNormalization.cxx
VectorTo4DImageConverter.cxx
▼ Visualization
MeshFromDiscreteFiberODF.cxx
MeshFromPeaks.cxx	Created "08-29-2016
MeshFromSHCoefficients.cxx
MeshFromSphericalFunctionTessellatedSamples.cxx
MeshFromTensors.cxx	Created "06-19-2017
MeshFromTracts.cxx	Created "08-23-2017
OrientationsViewer.cxx
RGBImageToVTKXMLImageConverter.cxx
VectorImageToVTKXMLImageConverter.cxx
VTKXMLImageToVectorImageConverter.cxx
▼ dmritool-build
DMRITOOLConfigure.h
▼ Modules
▼ Common
► include
itkCastImageFileWriter.h
itkCastImageFileWriter.hxx
itkCastVectorImageFileWriter.h
itkCastVectorImageFileWriter.hxx
itkComposeVectorImageFilter.h	Created "06-27-2016
itkComposeVectorImageFilter.hxx	Created "06-27-2016
itkFunctorBaseVectorImageFilter.h	Created "09-13-2016
itkFunctorFromStringImageFilter.h	Created "04-06-2017
itkFunctorFromStringImageFilter.hxx	Created "04-06-2017
itkMaskedImageToImageFilter.h
itkMaskedImageToImageFilter.hxx
itkMultiplyByConstantMatrixVectorImageFilter.h	Created "02-16-2015
itkMultiplyByConstantVectorImageFilter.h
itkMultiVariableFunctorVectorImageFilter.h	Created "09-13-2016
itkMultiVariableFunctorVectorImageFilter.hxx	Created "09-13-2016
itkMultiVolumeImageToVectorImageFilter.h
itkMultiVolumeImageToVectorImageFilter.hxx
itkNormalizeVectorImageFilter.h
itkOuterProductVectorImageFilter.h	Created "06-27-2016
itkSlowPolyLineParametricPath.h
itkSlowPolyLineParametricPath.hxx
itkStructureTensorImageFilter.h	Created "06-27-2016
itkStructureTensorImageFilter.hxx	Created "06-27-2016
itkUnaryFunctorVectorImageFilter.h	Created "09-11-2016
itkUnaryFunctorVectorImageFilter.hxx	Created "09-11-2016
itkVectorImageChannelFilter.h	Created "06-27-2016
itkVectorImageChannelFilter.hxx	Created "06-27-2016
itkVectorImageRegionIterator.h	Created "06-10-2016
itkVectorImageRegionIteratorWithIndex.h	Created "06-19-2016
itkVectorImageRegionIteratorWithIndexSpecial.h	Created "11-12-2017
itkVectorImageToMultiVolumeImageFilter.h
itkVectorImageToMultiVolumeImageFilter.hxx
▼ DiffusionModels
► include
itkBasisMatrixGenerator.h
itkBasisMatrixGenerator.hxx
itkCylinderModelGenerator.h
itkCylinderModelGenerator.hxx
itkDiffusionModelEstimationImageFilter.h
itkDiffusionModelEstimationImageFilter.hxx
itkDiffusionModelEstimationInSphericalCoordinateImageFilter.h
itkDiffusionModelEstimationInSphericalCoordinateImageFilter.hxx
itkDiffusionModelGenerator.h
itkDiffusionTensor.h
itkDiffusionTensor.hxx
itkDiscreteBasisMatrixGenerator.h
itkDiscreteBasisMatrixGenerator.hxx
itkFeaturesFromSPFImageFilter.h
itkFeaturesFromSPFImageFilter.hxx
itkGeneralizedHighOrderTensorImageFilter.h
itkGeneralizedHighOrderTensorImageFilter.hxx
itkMeanDiffusivityFromGHOTImageFilter.h
itkNormalizeODFImageFilter.h
itkODFFromSPFImageFilter.h
itkODFFromSPFImageFilter.hxx
itkPeakContainerHelper.h
itkProfileFromSPFImageFilter.h
itkProfileFromSPFImageFilter.hxx
itkRotateSHCoefficientsImageFilter.h
itkScalarMapFromSPFImageFilter.h	Created "03-18-2014
itkScalarMapFromSPFImageFilter.hxx	Created "03-18-2014
itkSHCoefficientsPowerImageFilter.h	Created "02-04-2016
itkSHCoefficientsToGFAImageFilter.h	In each vxoel, calculate gfa from SH coefficients Created "02-12-2014
itkSPFScaleFromMeanDiffusivityImageFilter.h
itkSphericalPolarFourierEstimationImageFilter.h	Estimate the coeffcients of generalized Spherical Polar Fourier basis which can be separated into differe radial basis and sphercial basis
itkSphericalPolarFourierEstimationImageFilter.hxx
itkSphericalPolarFourierImageFilter.h
itkSphericalPolarFourierImageFilter.hxx
itkTensorBasisMatrixGenerator.h
itkTensorBasisMatrixGenerator.hxx
▼ DWIProcessing
► include
itkAddNoiseToDWIImageFilter.h
itkAddNoiseToDWIImageFilter.hxx
itkDWIGenerator.h
itkDWIGenerator.hxx
itkDWIGeneratorBase.h
itkDWIGeneratorBase.hxx
itkDWIReader.h
itkDWIReader.hxx
itkDWISingleVoxelGenerator.h
itkDWISingleVoxelGenerator.hxx
itkDWIWriter.h
itkDWIWriter.hxx
▼ HelperFunctions
► include
utl.h	Helper functions specifically used in dmritool
utl4thOrderTensor.h	Created "06-21-2016
utl_cblas.h
utlBlas.h
utlCommandLineParser.h	Small but powerful CMD parser, borrowed from CImg, http://cimg.sourceforge.net/
utlConstants.h	Created "09-22-2016
utlCore.h
utlCore11.h	Utl functions using c++11 Created "07-02-2016
utlCoreMacro.h	Macros for utlCore
utlCoreMKL.h
utlDMRI.h
utlDMRIStoredTables.h	Created "11-12-2015
utlExpression.h
utlExprtk.h	Created "04-05-2017
utlFunctors.h	Functors in utl
utlGTest.h
utlITK.h
utlITKConceptChecking.h	Created "06-10-2016
utlITKMacro.h
utlLapack.h
utlMath.h
utlMatrix.h	Utl::NDArray<T,2> class which uses blas mkl
utlMKL.h
utlNDArray.h
utlNDArrayFunctions.h	Created "07-03-2016
utlOpenMP.h
utlRotationMatrixFromVectors.h
utlSmartAssert.h
utlSTDHeaders.h
utlTypeinfo.h	Created "07-04-2016
utlVector.h	Utl::NDArray<T,1> class which uses blas mkl
utlVNL.h	Help functions for VNL
utlVNLBlas.h
utlVNLIO.h
utlVNLLapack.h
utlVTK.h	Created "06-06-2017
utlVTKMacro.h	Created "02-18-2015
▼ Math
► include
itkFunctorHashTable.h
itkFunctors.h
itkFunctorTableBase.h
itkSHCoefficientsFit.h	Created "10-06-2016
itkSHCoefficientsRotation.h	Created "03-26-2014
itkSpecialFunctionGenerator.h
itkSpecialFunctionGenerator.hxx
itkSphericalHarmonicsGenerator.h
itkSphericalHarmonicsGenerator.hxx
itkSphericalPolarFourierGenerator.h
itkSphericalPolarFourierGenerator.hxx
itkUnaryFunctorLookUpTable.h
▼ Observers
► include
itkCommandProgressUpdate.h
▼ SamplingScheme
► include
itkSamplingScheme3D.h
itkSamplingScheme3D.hxx
itkSamplingSchemeQSpace.h
itkSamplingSchemeQSpace.hxx
itkSamplingSchemeQSpace1OptEstimationFilter.h	Created "01-16-2017
itkSamplingSchemeQSpace1OptEstimationFilter.hxx	Created "01-16-2017
itkSamplingSchemeQSpaceEstimationFilter.h
itkSamplingSchemeQSpaceIMOCEstimationFilter.h
itkSamplingSchemeQSpaceIMOCEstimationFilter.hxx
itkSamplingSchemeQSpaceIncrementalEstimationFilter.h
itkSamplingSchemeQSpaceIncrementalEstimationFilter.hxx
itkSamplingSchemeQSpaceWriter.h
itkSamplingSchemeQSpaceWriter.hxx
itkSphereTessellator.h
itkSphereTessellator.hxx
▼ Solvers
► include
itkIterativeSolverBase.h
itkIterativeSolverBase.hxx
itkL1RegularizedLeastSquaresFISTASolver.h
itkL1RegularizedLeastSquaresFISTASolver.hxx
itkL2RegularizedLeastSquaresSolver.h
itkL2RegularizedLeastSquaresSolver.hxx
itkSolverBase.h
itkSolverBase.hxx
itkSpamsWeightedLassoSolver.h
itkSpamsWeightedLassoSolver.hxx
▼ Tractography
► include
itkFiber.h	Created "07-24-2017
itkFiber.hxx	Created "07-24-2017
itkFiberTracts.h	Created "07-22-2017
itkFiberTracts.hxx	Created "07-24-2017
itkFiberTractsReader.h	Created "08-23-2017
itkFiberTractsReader.hxx	Created "08-23-2017
itkFiberTractsWriter.h	Created "07-23-2017
itkFiberTractsWriter.hxx	Created "07-23-2017
itkTrackvisHeader.h	Created "07-22-2017
▼ Visualization
► include
itkImageToVTKImageDataFilter.h
itkImageToVTKImageDataFilter.hxx
itkMeshFromContinuousSphericalFunctionImageFilter.h
itkMeshFromContinuousSphericalFunctionImageFilter.hxx
itkMeshFromDiscreteFiberODFImageFilter.h
itkMeshFromFiberTractsFilter.h	Created "08-23-2017
itkMeshFromFiberTractsFilter.hxx	Created "08-23-2017
itkMeshFromImageImageFilter.h
itkMeshFromPeaksImageFilter.h	Created "08-26-2016
itkMeshFromPeaksImageFilter.hxx	Created "08-26-2016
itkMeshFromSHCoefficientsImageFilter.h
itkMeshFromSphericalFunctionImageFilter.h
itkMeshFromSphericalFunctionTessellatedSamplesImageFilter.h
itkMeshFromTensorImageFilter.h	Created "06-09-2017
itkMeshFromTensorImageFilter.hxx	Created "06-09-2017
itkRGBImageToVTKImageDataFilter.h
itkRGBImageToVTKImageDataFilter.hxx
itkVTKImageDataToImageFilter.h
itkVTKImageDataToImageFilter.hxx
vtkPolyDataViewer.h	Created "06-08-2017
vtkPolyDataViewer.hxx	Created "06-08-2017
▼ QTApplications
▼ vtkviewer
main.cxx
VTKViewer.cxx
VTKViewer.h
▼ ThirdParty
▼ exprtk
► include
exprtk_lib.h	Created "04-04-2017
► src
exprtk_lib.cxx
▼ Spams
► include
cblas_alt_template.h
cblas_defvar.h
cblas_template.h
dag.h
decomp.h	Contains sparse decomposition algorithms It requires the toolbox linalg
dicts.h	Contains dictionary learning algorithms It requires the toolbox decomp
fista.h
linalg.h
list.h
misc.h	Contains miscellaneous functions
project.h
utils.h	Contains various variables and class timer
utlITKSpams.h
utlSpams.h
▼ SpatiallyDenseSparseVectorImage
► include
itkSparseVector.h
itkSpatiallyDenseSparseVectorImage.h
itkSpatiallyDenseSparseVectorImage.hxx
itkSpatiallyDenseSparseVectorImageFileReader.h
itkSpatiallyDenseSparseVectorImageFileReader.hxx
itkSpatiallyDenseSparseVectorImageFileWriter.h
itkSpatiallyDenseSparseVectorImageFileWriter.hxx
itkSpatiallyDenseSparseVectorImageNeighborhoodAccessorFunctor.h
itkSpatiallyDenseSparseVectorImagePixelAccessor.h
itkSpatiallyDenseSparseVectorImagePixelAccessorFunctor.h
▼ VariableLengthVectorImage
► include
itkVariableLengthVectorImageFileReader.h
itkVariableLengthVectorImageFileReader.hxx
itkVariableLengthVectorImageFileWriter.h
itkVariableLengthVectorImageFileWriter.hxx
▼ ThirdPartyApplications
▼ SpatiallyDenseSparseImage
SparseToVectorImageConverter.cxx
VectorToSparseImageConverter.cxx
▼ Wrapping
▼ Matlab
► Common
mexITKImageRead.cxx
mexITKImageWrite.cxx
► DiffusionModels
mexGetSamplesFromSPFCoefficients.cxx
mexGetSHBasisMatrix.cxx
mexGetSPFBasisMatrix.cxx
mexSphericalPolarFourierImaging.cxx
► DWIProcessing
mexReadDWIList.cxx
► MEXHelperFunctions
mexITK.h
mexSTD.h
mexutils.h	Contains miscellaneous functions for mex files. utl functions for mex code. Some codes are from spams by Julien Mairal julie.nosp@m.n.ma.nosp@m.iral@.nosp@m.inri.nosp@m.a.fr
mexVNL.h
utlMEX.h
► SamplingScheme
mexReadGrad.cxx
► Tests
test_purecpp.cxx
test_puremex.cxx
test_puremexitk.cxx
test_puremexOpenmp.cxx
test_Spams.cxx
test_Spams2.cxx	Mex-file, function mexLasso Usage: alpha = mexLassoWeights(X,D,W,param);