Hi Moritz,
your question has, I think, two different answers:
> I am wondering if there is a way to do single-subject non-rigid image registration in SPM8: I would like to register a structural scan (such as MPRAGE or TSE) to an EPI scan, or register an EPI to the structural scan, get the parameters for this registration and apply them to a fMRI parameter map (to register the single-subject activation map to the structural scan)
Normally, this is done by coregistering images, which is a rigid-body
procedure. This may not be totally appropriate if you have severe
distortions in the EPIs which preclude a good matching of both
modalities, but should usually be ok.
> Until now I found the "High-Dimensional Warping" module and when I plug in the two scans (EPI and MPRAGE), I get a deformation field and Jacobian determinant image - but no registered image. Is there a second step where I have to apply these two results to one of the images? If so, how can I do that? I tried the "Deformations" module by using the y_* file and applying it to the structural scan. Same Result: The "registered" image is the same as the original image, i.e. no image deformation was performed.
If you want to use the HDW module, you would have to then use the
deformation toolbox in order to apply the deformation field to any image
in register with the source image that was moved in the first place.
An alternative may be to use features from "spatial normalization"
instead, which you could turn into a "low-dimensional" non-rigid
deformation tool for within-subject registration if you turn off the
affine registration. This may require some playing with the options,
though. Also, remember that any non-rigid deformation applied to the
images will require to write them out, introducing additional
interpolation effects.
Hope this helps,
Marko
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PD Dr. med. Marko Wilke
Facharzt für Kinder- und Jugendmedizin
Leiter, Experimentelle Pädiatrische Neurobildgebung
Universitäts-Kinderklinik
Abt. III (Neuropädiatrie)
Marko Wilke, MD, PhD
Pediatrician
Head, Experimental Pediatric Neuroimaging
University Children's Hospital
Dept. III (Pediatric Neurology)
Hoppe-Seyler-Str. 1
D - 72076 Tübingen, Germany
Tel. +49 7071 29-83416
Fax +49 7071 29-5473
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http://www.medizin.uni-tuebingen.de/kinder/epn
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