 |
 |
Hi, What is the best way to get an estimate of between-run motion when running analysis in FSL? I understand that FSL performs motion correction within run (Mcflirt) using the middle volume of the each run as reference. And since each run is independently registered to the standard space, I suppose there is no need to do a between-run motion correction as in other packages. However, is it possible to still get an estimate of this value? My suspicion is that this can be inferred by looking at the registration outputs (examplefunc2standard.mat) but am not sure what values to exactly use. Also, is it possible that between-run motion can cause some form of mis-registration which could lead to some weird activations on and around the ventricles, when combining across runs within each subject? Vinod