This small pipeline will use SPM to perform an anatomical normalization, and then convert the SPM normalization matrix into a Morphologist-compatible one. If needed and allowed, it can also reorient the initial anatomica image if it was incorrectly oriented.
Please read the docs of the SPM normalization processes for details and possible issues.
t1mri: Raw T1 MRI ( entr�e )
transformation: Transform Raw T1 MRI to Talairach-MNI template-SPM ( sortie )
spm_transformation: SPM2 normalization matrix ( sortie )
normalized_t1mri: Raw T1 MRI ( sortie )
template: anatomical Template ( entr�e )
allow_flip_initial_MRI: Bool�en ( input )
allow_retry_initialization: Bool�en ( input )
Toolbox : Morphologist
Niveau d'utilisateur : 1
Identifiant :
SPMnormalizationPipeline
Nom de fichier :
brainvisa/toolboxes/morphologist/processes/registration/SPMnormalizationPipeline.py
Supported file formats :
t1mri :NIFTI-1 image, gz compressed NIFTI-1 image, SPM imagetransformation :Transformation matrixspm_transformation :Matlab filenormalized_t1mri :NIFTI-1 image, SPM imagetemplate :NIFTI-1 image, MINC image, gz compressed NIFTI-1 image