Kathleen,
I will shamelessly take this opportunity to suggest you look at the CerebroMatic toolbox for your scenario ("small and unusual" is right down its alley). You can download it from
https://www.medizin.uni-tuebingen.de/kinder/en/research/neuroimaging/software/
and there are even some papers to read up on it if you want to, referred to in the manual.
Cheers
Marko
--
____________________________________________________
Prof. Dr. med. Marko Wilke
Facharzt für Kinder- und Jugendmedizin
Leiter, Experimentelle Pädiatrische Neurobildgebung
Oberarzt der Abteilung Neuropädiatrie
Universitäts-Kinderklinik
Marko Wilke, MD, PhD
Pediatrician
Head, Experimental Pediatric Neuroimaging
Consultant in Pediatric Neurology
University Children's Hospital
Hoppe-Seyler-Str. 1
D - 72076 Tübingen, Germany
Tel. +49 7071 29-83416
Fax +49 7071 29-5473
[log in to unmask]
http://www.medizin.uni-tuebingen.de/kinder/epn/
____________________________________________________
>>> "Hupfeld,Kathleen E" <[log in to unmask]> 29.09.18 22.16 Uhr >>>
Dear SPM experts,
We have fMRI data from an unusual and small patient population. We do not think that the regular SPM12 pipeline for normalizing the functional images to MNI space has worked well for this population.
What is the appropriate pipeline for creating a study-specific template for normalizing these functional images?
i.e., can we go about somehow creating the 6 "TPM.nii" images for our population specifically, use these TPM.nii images to segment our T1s, and then apply the deformation field from this segmentation to better normalize our functional images? --or is a different approach correct instead?
Best wishes,
Kathleen
Kathleen Hupfeld
PhD Student, Biobehavioral Science
Neuromotor Behavior Lab
Department of Applied Physiology & Kinesiology
University of Florida
https://doi.org/10.3389/fncom.2017.00005
https://doi.org/10.3389/fncom.2017.00005
https://doi.org/10.1016/j.dib.2017.12.001
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