Dear all,
I am using dicm2niix to convert my dicoms to NIFTI. In the .json file, I am getting the PhaseEncodingDirection for my functional scan as “i”.
I am somewhat confused with this since the phase encoding for the data (as per our protocol) is A>P, which should normally be “j-”? One thing to note is that the data was acquired in the following orientation:
Data acquisition sequence is : Saggital > Coronal > Transversal
Sagittal R >> L
Coronal A >> P
Transversal F >> H
The PhaseEncodingDirection of “i” in the .json file for the functional scans is also causing problems during fieldmap distortion correction - the warping of the data is being done in the L/R axis and not the A/P axis.
I am not sure how to resolve this, and I am wary about manually changing the “i” to “j-”.
Does anyone know why dcm2niix is giving “i” instead of “j”?
The data in BIDS format is here: Dropbox - sub-ID01 - Simplify your life
Thank you so much.