I’d like to do a fixel-based analysis in certain tracts of interest (segmented with TractSeg) and was unsure about the best way to go about this. I’ve read these threads
but since they all are a few years old there may be other recommendations or even a standard method by now.
My first idea before reading all this was to 1) follow the regular steps for fixel-based analysis in template space, 2) to run TractSeg on each subject’s peaks file (by converting each subject’s wmfod.mif to wmfod.nii.gz, then running sh2peaks on it) with TractSeg -i my/path/peaks.nii.gz, 3) to apply the mask for a given tract to each subject’s template space FD/FDC/log(FC) file and extract the mean for that tract, and 4) to then use those means in statistical analysis.
After reading those threads I get the impression that my approach is too simple and not considering some fine points, so I’d appreciate any thoughts on how to do this and whether there is some agreement about a more or less standard best practice at the moment!
