dipy_snr_in_cc#

Synopsis#

Compute the signal-to-noise ratio in the corpus callosum.

Usage#

dipy_snr_in_cc [OPTIONS] data_files bvals_files bvecs_files mask_file

Input Parameters#

  • data_files

    Path to the dwi.nii.gz file. This path may contain wildcards to process multiple inputs at once.

  • bvals_files

    Path of bvals.

  • bvecs_files

    Path of bvecs.

  • mask_file

    Path of a brain mask file.

General Options#

  • --bbox_threshold

    Threshold for bounding box, values separated with commas for ex. [0.6,1,0,0.1,0,0.1]. (default: (0.6, 1, 0, 0.1, 0, 0.1))

Output Options#

  • --out_dir

    Where the resulting file will be saved. (default: current directory)

  • --out_file

    Name of the result file to be saved. (default: product.json)

  • --out_mask_cc

    Name of the CC mask volume to be saved. (default: cc.nii.gz)

  • --out_mask_noise

    Name of the mask noise volume to be saved. (default: mask_noise.nii.gz)

References#

Garyfallidis, E., M. Brett, B. Amirbekian, A. Rokem, S. Van Der Walt, M. Descoteaux, and I. Nimmo-Smith. Dipy, a library for the analysis of diffusion MRI data. Frontiers in Neuroinformatics, 1-18, 2014.

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