fedi_dmri_moco

Synopsis

Motion correction of diffusion MRI data using an iterative pipeline with outlier detection, SHORE fitting, registration, and b-vector rotation.

Usage

fedi_dmri_moco [-h] -d <file> -a <file> -e <file> -o <file> [-m <file>]

Options

Help

• -h, –help Show this help message and exit

Mandatory

• -d, –dmri <file> Path to the diffusion MRI file

• -a, –bval <file> Path to the b-values file

• -e, –bvec <file> Path to the b-vectors file

• -o, –output_dir <file> Output directory path

Optional

• -m, –mask <file> Path to the mask file (required for GMM weighting)

References

Snoussi, Haykel, Davood Karimi, Onur Afacan, Mustafa Utkur, and Ali Gholipour. HAITCH: A framework for distortion and motion correction in fetal multi-shell diffusion-weighted MRI. Imaging Neuroscience 2025.