Dear Karsten,
I think there is something basic we do not understand. Let us consider a single
subject experiment. We have fmri images of an experiment with visual
stimulation. By using the DISPLAY tool we note that the images are rotated
up-down so we rotate all the functional and structural t1 images of pitch angle
of 3.14. Then we make the realignment and smoothing steps. We build up the
design matrix, solve the linear system and perform the statistical analysis.
When we have the activations, we would like to superimpose them on the
structural t1 image. What we think is that in this situation we do not need the
normalization step. We performed the coregistering step between the functional
images and the t1 image but we have the same inversion problem when we use the
overlay with slices (the z-values are inverted). Could you please help us in
finding our mistake? Another question: should the coregistering operation come
before the realignment one or after?
Thank you very much,
Michele.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
|