Elastix Registration

Transform a raw dataset to reference using the Elastix alignement results

Parameters

test: 3D Volume ( input )

Image to be transformed

ElastixTransformationDirectory: Directory ( input )

Result directory of Elastix alignment

output: Directory ( output )

sink: 3D Volume ( output )

Image sink to save transformed image to.

Technical information

Toolbox : Bioprocessing

User level : 3

Identifier : ElastixRegistration

File name : brainvisa/toolboxes/bioprocessing/processes/research/projects/clearmap/ElastixRegistration.py

Supported file formats :

test :

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

ElastixTransformationDirectory :

Directory, Directory

output :

Directory, Directory

sink :

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