Dear developers,
I am working with DWI data with a single b=0 and remaining b=1000 for 64 directions. All images were collected in AP.
I have successfully run Synb0 to create the corrected undistorted b0 image and I am preparing to feed the data in EDDY. I was wondering if I should use the Synb0 corrected b0 or the original distorted b0 to create a brain mask for EDDY, taking into account that the dwi data is not yet corrected for susceptibility distortion.
Thank you for your help!