Skull-stripped brain normalization

None

Parameters

t1mri: Raw T1 MRI ( input )

brain_mask: Brain Mask ( input )

template: anatomical Template ( input )

skull_stripped: Raw T1 MRI Brain Masked ( output )

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

talairach_transformation: Transform Raw T1 MRI to Talairach-AC/PC-Anatomist ( output )

commissure_coordinates: Commissure coordinates ( output )

Technical information

Toolbox : Morphologist

User level : 2

Identifier : normalization_skullstripped

File name : brainvisa/toolboxes/morphologist/processes/registration/normalization_skullstripped.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

brain_mask :

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

template :

NIFTI-1 image, MINC image, NIFTI-1 image, SPM image

skull_stripped :

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

talairach_transformation :

Transformation matrix, Transformation matrix

commissure_coordinates :

Commissure coordinates, Commissure coordinates