Diffusion Data Preprocessing

Citation
Cieslak, Matthew, Philip A Cook, Xiaosong He, Fang-Cheng Yeh, Thijs Dhollander, Azeez Adebimpe, Geoffrey K Aguirre, et al. 2021. “QSIPrep: An Integrative Platform for Preprocessing and Reconstructing Diffusion Mri Data.” Nature Methods 18 (7). Nature Publishing Group US New York: 775–78. https://doi.org/10.1038/s41592-021-01185-5.

More citations (Click to expand/minimize)

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Diffusion data were preprocessed using QSIPrep.

Diffusion data were denoised using the Marchenko-Pastur PCA (MP-PCA) method, followed by Gibbs ringing removal, and correction for field inhomogeneity (N4). Motion and Eddy current distortions were corrected with FSL’s eddy. Final DWI data were resampled to ACPC space.

IMPORTANT: The exact QSIPrep pipeline is documented in the boilerplate located at <QSIPrep_output>/logs/CITATION.html. If the data were processed with BABS (i.e., were zipped), refer to Get Data for details on unzipping <QSIPrep_output> to access the boilerplate file.

Quality Control

QSIPrep produces *desc-image_qc.tsv files for QC dMRI data, more details here.