Create DISCO deformation field from subjectA to subjectB

This tool creates an deformation field mapping data from subjectA space into subjectB space, considering DISCO deformations.

Description

1. Choose the type of the study (Native or AfterDISCO).
2. Select the study directory of the experiment
3. Choose the nobias of subjectA.
4. Choose the nobias of subjectB.

If the subjectA (subjectB) to be considered has been pre-processed before the Morphologist processing (add border to initial data), it is possible to estimate the global deformation field using the Other mode of the choice_native_image_A (choice_native_image_B) parameter. In this case, add the initial data (in native_image_A (native_image_B)) and the transformation representing the added border (border_nobias_A (border_nobias_B)).

Parameters

study_dir: DISCO Study Dir ( input )

Study directory of the experiment

subjects_hierarchy: Save Subjects Hierarchy DISCO ( input )

nobias_A: T1 MRI Bias Corrected ( input )

nobias_B: T1 MRI Bias Corrected ( input )

choice_native_image_A: Choice ( input )

native_image_A: 4D Volume ( optional, input )

border_nobias_A: Transformation matrix ( optional, input )

• Choose Morphologist nobias if you want the deformation field to have the geometry of the data that was used as an input to DISCO (i.e. the image processed through Morphologist).
• Choose Other for using a different geometry (e.g. an image with a different field of view, such as a cropped image).

choice_native_image_B: Choice ( input )

native_image_B: 4D Volume ( optional, input )

border_nobias_B: Transformation matrix ( optional, input )

vectorinterpolation: Choice ( input )

interpDISCO: Choice ( input )

Talairach_transform_A: Transform Graph to Talairach-AC/PC-Anatomist ( input )

Talairach_transform_B: Transform Graph to Talairach-AC/PC-Anatomist ( input )

displacement_field_A: FFD Field defData DISCO ( input )

inv_displacement_field_A: FFD Field defData Inversed DISCO ( input )

displacement_field_B: FFD Field defData DISCO ( input )

inv_displacement_field_B: FFD Field defData Inversed DISCO ( input )

inv_final_disp_field_A_TO_B: FFD Field defData Inversed DISCO A TO B ( output )

final_disp_field_A_TO_B: FFD Field defData DISCO A TO B ( output )

Technical information

Toolbox : Disco

User level : 1

Identifier : create_disco_deffield_betweensubjects

File name : brainvisa/toolboxes/disco/processes/Deformation/create_disco_deffield_betweensubjects.py

Supported file formats :

study_dir :

Directory, Directory

subjects_hierarchy :

Text file, Text file

nobias_A :

NIFTI-1 image, NIFTI-1 image

nobias_B :

NIFTI-1 image, NIFTI-1 image

native_image_A :

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

border_nobias_A :

Transformation matrix, Transformation matrix

native_image_B :

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

border_nobias_B :

Transformation matrix, Transformation matrix

Talairach_transform_A :

Transformation matrix, Transformation matrix

Talairach_transform_B :

Transformation matrix, Transformation matrix

displacement_field_A :

GIS image, GIS image

inv_displacement_field_A :

GIS image, GIS image

displacement_field_B :

GIS image, GIS image

inv_displacement_field_B :

GIS image, GIS image

inv_final_disp_field_A_TO_B :

GIS image, GIS image

final_disp_field_A_TO_B :

GIS image, GIS image