Creating spatially normalized image using SPM

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  • Note spatial normalization need only be done once per subject
  • Make sure your spm_defaults.m file is set up properly (see [[Bil.Nutmeg][NUTMEG]] wiki)
  • In matlab, type spm fmri
  • Click "Normalize"
  • select starred option: Determine Parameters & Write Normalised
  • Select T1.img for the "template image"
  • Select your subject's MRI for "Source image" (should be located in /data/research_meg/mr/LastnameFirstname/LastnameFirstname_mri/)
  • Select the same MRI for "Images to write"
  • Click "done" (or select another subject and repeat above two steps)
  • It'll run for a few minutes, and present you with a comparison of your subject's normalized MRI and the template brain. Click around to make sure things match satisfactorily, and you're set.
  • You'll be left with output files with "w" and "y_" prepended to the original filenames.
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