Hi Mohammad, I am surprised that the workflow you described did not work. In MITK, we use the itk::DiffusionTensor3D< float > as datatype for the tensor images, which indeed is an 6-element array. So the stored 6 components are mapped directly to the array.
Also for the reconstruction of the full (symmetrical) matrix, you did chose the right ordering. There is a note in the ITK Documentation for the method ::GetTrace() of the diffusion tensor which reads: /** * Get the Trace, specialized version for 3D. * * Note that the indices are related to the fact * that we store only the upper-right triangle of * the matrix. Like * * | 0 1 2 | * | X 3 4 | * | X X 5 | * * The trace is therefore the sum of the components * M[0], M[3] and M[5]. * */ And I also took look into the operator()(row,column) of the itk::SymmetricTensor3D class which allows a ‘matrix-like’ access to the internal array and it makes the same mapping of the elements. How did you found out that this ordering is not working in your code? Best, Jan From: Mohammad Bajammal [mailto:msbajam...@gmail.com] Sent: Freitag, 4. September 2015 06:56 To: mitk-users@lists.sourceforge.net Subject: [mitk-users] MitkTensorReconstruction output data structure Hi, I'm using the MitkTensorReconstruction command line tool to generate a dti (nrrd) file. I have successfully read the dti file tensors into another piece of code I'm writing. The tensors in the dti file have the following form: [volume width x volume height x volume depth x 6], where 6 is the number of scalars necessary to completely define the diffusion tensor. My question is: what sequence should I use to reconstruct the full 3x3 diffusion tensor back from the 6 elements vector? I have tried the following order: [1 2 3] [2 4 5] [3 5 6] but it's not working. This was based on checking the source code of the tensor reconstruction miniapps to reverse the tensor serialization. Your help is greatly appreciated. Mohammad
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