Hello all, 

I am new to the DKI preprocessing using MRtrix/fsl and I am encountering a challenge with my dataset.

Specifically, my collected data consists only of three files: *.nii, *.bvec, and *.bval. 
PS: I do not have PA or AP phase-encoded image files included.

In my preprocessing workflow, I have employed the following commands:

 

mrconvert -fslgrad HC001_preop.bvec HC001_preop.bval HC001_preop.nii HC001_dwi.mif
dwidenoise HC001_dwi.mif HC001_den.mif -noise noise.mif
dwiextract HC001_den.mif - -bzero | mrmath - mean mean_bzero.mif -axis 3
mrcalc HC001_dwi.mif HC001_den.mif -subtract residual.mif
mrdegibbs HC001_den.mif HC001_den_unr.mif

 

However, I am encountering difficulty with the "dwifslpreproc" command.
I would greatly appreciate your guidance on how to proceed with the preprocessing in the absence of the phase-encoded files? Could someone please assist me in navigating this issue?