Dear SPM users
Thank you very much for your help. Yes, I used the normalise tool to
register an EPI to a T2 image from the same subject. The transformed image
looks good. I now want to apply this transformation to landmarks (in world
coordinates) that I had placed on the unregistered EPI and see where they
end up. I’ve tried using your code (get_coord_orig.m), but I don’t get
plausible results. For example, the point [0, 0, 0] gets mapped to around
[120, 120, 58], which makes me think there is a problem with where the
origin is defined in the images. Also, can you explain what information is
contained in the transformation (Tr) matrix that is given as an output of
the normalise tool, please?
I am also unsure about the dimensions to include for the bounding box. Why
is it defined from the anterior commissure? Where do the default values
come from?
Thanks again. Best wishes,
Mustafa
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