Hi FSL group,
I've been curious about this for a while, and I'm hoping that someone can clear this up for
me. Typically, I define ROIs spatially in standard space coordinates - either as a result of
statistical effects in group-level analyses or atlas coordinates reported in MNI space.
However, when extracting percent signal change from individual lower-level feat output,
featquery will downsample my standard space ROI into the BOLD native space for that
subject. When this occurs, it seems like I lose some of the spatial specificity of my ROI,
which is undesirable.
Is there a reason why we can't use the standard space images that are created for each
participant (in reg_standard/ and reg_standard/stats) when the higher-level is run? Why
does featquery go down to native BOLD space to extract percent signal change, rather than
staying in MNI space?