Structure of .eig.nii.gz

Forums Forums BrainSuite Diffusion Pipeline (BDP) Structure of .eig.nii.gz

Viewing 3 reply threads
  • Author
    Posts
    • #995
      tderamus
      Participant

      Hi BrainSuite Experts.

      I’m attempting to reconstruct some tensors I computed using Matlab and FSL to visualize them in Brainsuite, but I’m at a loss as to how to construct and load these images into Brainsuite.

      I know in the documentation it says the .eig.nii.gz files contain eigenvalues and eigenvectors, but are these stacked as a timeseries?

      More importantly, is it all eigenvalues and then all eigenvectors? Or is it each eigenvalue followed by its corresponding vectors in time?

      Thank you.

    • #1026
      divarada
      Participant

      You can use the following function available in our source code release to generate eig.nii.gz files that can be visualized on BrainSuite.

      function generate_eig_file(L1, L2, L3, V1, V2, V3, outputFileName)
      %GENERATE_EIG Generate .eig file. Eigenvalues (L1, L2, L3) &
      % Eigenvectors(V1, V2, V3) can be nii structures or .nii.gz or .nii files.
      %
      % outputFileName – file name with/without extension (with full path)
      %

      As you can see in the description, it just needs the tensor eigenvalues and eigenvectors. The function concatenates these files in a certain way that BrainSuite understands. It should be clear when you just look at this function.

      Thanks.

    • #1047
      tderamus
      Participant

      My apologies,

      But I’ve gone through the the BrainSuite GUI and command line tools and the BDP source code and I can’t seem to locate this function in either.

      I can’t seem to locate a command in my linux installation of Brainsuite17a either.

      Would you happen to be able to point me to the download in which is located? Or the command in linux I would use?

    • #1048
      tderamus
      Participant

      Nevermind I just found it in:

      BDP16a_src\data_handling_tools

      Thank you!

Viewing 3 reply threads
  • You must be logged in to reply to this topic.