This question isn’t necessarily specific just to mrtrix, however, I am trying to process HCP data from the S1200 release. I am using the pre-processed data and something I realize is that a lot of the b-values are slightly different between subject acquisition.
I created bval and bvecs from mrconvert for each subject and am now trying to use these to run AMICO to fit theNODDI model to the data. However, it seems that the bval.scheme created from these bvals and bvecs is different between subjects because a lot of the values have a +/-5 error (2995, 3000, and 3005).
Has anyone worked with HCP data and figured out a way to overcome issues with the bval scheme? I have use mrtrix b-value threshold so that the b=5 are considered b=0 but the higher bval shells have become a problem for model fitting with techniques like AMICO/NODDI.
Thanks for any advice or experience anyone can provide!