Hi DWI experts,
I'm wondering if anyone has had experience with integrating certain steps of a typical DTIPrep pipeline with FSL DTI analysis (specifically, TBSS).
I'd like to integrate DTIPrep's (1) Slice-wise intensity checking and (2) Interlace-wise Venetian Blind checking with my FSL DTI preprocessing and subsequent analysis steps (eddy, dtifit, tbss1, tbss2, tbss3, tbss4, randomise).
However, I'm working with PAR/REC files from a Phillips scanner, and I'm not sure how to convert these into NRRDs, the required filetype for DTIPrep. Should I convert the PARRECs to DICOM and then to NRRD? If so, I haven't been able to find a way to convert PARRECs to DICOM and would appreciate any guidance.
And after running DTIPrep preprocessing, I'd convert DTIPrep's NRRD output into NIFTI to be further preprocessed and analyzed in FSL.
Thank you! Any help is much appreciated.
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