Structure of .eig.nii.gz

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

This topic contains 3 replies, has 2 voices, and was last updated by  tderamus 2 years, 3 months ago.

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  • #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!

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