Reorient Anatomy

None

Parameters

t1mri: Raw T1 MRI ( input )

output_t1mri: Raw T1 MRI ( output )

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

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

commissures_coordinates: Commissure coordinates ( optional, input )

output_commissures_coordinates: Commissure coordinates ( optional, output )

allow_flip_initial_MRI: Boolean ( input )

Technical information

Toolbox : Morphologist

User level : 0

Identifier : reorientAnatomy

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

Supported file formats :

t1mri :

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

output_t1mri :

gz compressed NIFTI-1 image, BMP image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, GIF image, GIS image, JPEG image, MINC image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, TIFF image, TIFF(.tif) image, VIDA image, XBM image, XPM image, gz compressed MINC image, gz compressed NIFTI-1 image

transformation :

Transformation matrix, Transformation matrix

output_transformation :

Transformation matrix, Transformation matrix

commissures_coordinates :

Commissure coordinates, Commissure coordinates

output_commissures_coordinates :

Commissure coordinates, Commissure coordinates