Normalization pipeline

None

Parameters

t1mri: Raw T1 MRI ( input )

transformation: Transform Raw T1 MRI to Talairach-MNI template-SPM ( output )

allow_flip_initial_MRI: Boolean ( input )

commissures_coordinates: Commissure coordinates ( optional, input )

reoriented_t1mri: Raw T1 MRI ( output )

output_commissures_coordinates: Commissure coordinates ( optional, output )

init_translation_origin: Choice ( input )

Technical information

Toolbox : Morphologist

User level : 0

Identifier : normalizationPipeline

File name : brainvisa/toolboxes/morphologist/processes/registration/normalizationPipeline.py

Supported file formats :

t1mri :

gz compressed NIFTI-1 image, Aperio svs, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, FreesurferMGH, FreesurferMGZ, GIS image, Hamamatsu ndpi, Hamamatsu vms, Hamamatsu vmu, JPEG image, Leica scn, MINC image, NIFTI-1 image, SPM image, Sakura svslide, TIFF image, TIFF image, TIFF(.tif) image, TIFF(.tif) image, Ventana bif, Zeiss czi, gz compressed MINC image, gz compressed NIFTI-1 image

transformation :

Transformation matrix, Transformation matrix

commissures_coordinates :

Commissure coordinates, Commissure coordinates

reoriented_t1mri :

gz compressed NIFTI-1 image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, GIS image, JPEG image, MINC image, NIFTI-1 image, SPM image, TIFF image, TIFF(.tif) image, gz compressed MINC image, gz compressed NIFTI-1 image

output_commissures_coordinates :

Commissure coordinates, Commissure coordinates