This tool creates a unique deformation field (and its inverse) that aligns data from subjectA space into subjectB space, considering either DISCO+DARTEL or Native DARTEL deformations.
- Choose the type of the study (Native or AfterDISCO).
- Select the study directory of the experiment
- Choose the nobias of subjectA.
- Choose the nobias of subjectB.
- Enter the name of the template given in 02. DARTEL Template Creation
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)).
The numerical parameters (final_isotropic_resolution, dartel_intermediate_dimension, min_x, max_X, min_y, max_Y, min_z, maxZ) and the crop_inv_trm transformation correspond to parameters in 01. Prepare grey and white maps for DARTEL.
study_type: Choice ( input )Type of the study (Native or AfterDISCO)
template_dir: DARTEL Template Dir ( input )Directory of the DARTEL experiment
study_dir: DISCO Study Dir ( input )Study directory of the experiment
nobias_A: T1 MRI Bias Corrected ( input )
nobias_B: T1 MRI Bias Corrected ( input )
choice_native_image_A: Choice ( input )Choose Morphologist nobias if data to be considered were those processed with Morphologist.Choose Other if data to be considered were the initial data (without border/crop required for Morphologist)
native_image_A: 4D Volume ( optional, input )initial data (without border/crop required for Morphologist)
border_nobias_A: Transformation matrix ( optional, input )translation added to initial data to be processed in Morphologist
choice_native_image_B: Choice ( input )Choose Morphologist nobias if data to be considered were those processed with Morphologist.Choose Other if data to be considered were the initial data (without border/crop required for Morphologist)
native_image_B: 4D Volume ( optional, input )initial data (without border/crop required for Morphologist)
border_nobias_B: Transformation matrix ( optional, input )translation added to initial data to be processed in Morphologist
inv_final_disp_field_A_TO_B: FFD Field defData Inversed DISCO DARTEL A TO B ( output )
final_disp_field_A_TO_B: FFD Field defData DISCO DARTEL A TO B ( output )
subjects_hierarchy: Save Subjects Hierarchy DISCO ( input )
subjects_hierarchy_DARTEL: Save Subjects Hierarchy DARTEL ( input )
vectorinterpolation: Choice ( input )
interpDISCO: Choice ( input )
interpDARTEL: Choice ( 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 )
compo_To_Tal_A: Compo To Resample To Talairach ( input )
compo_To_Tal_B: Compo To Resample To Talairach ( input )
flow_field_A: Flow Field DISCO DARTEL ( input )
flow_field_B: Flow Field DISCO DARTEL ( input )
Toolbox : Disco
User level : 1
Identifier :
create_discodartel_deffield_betweensubjects
File name :
brainvisa/toolboxes/disco/processes/Deformation/create_discodartel_deffield_betweensubjects.py
Supported file formats :
template_dir :Directory, Directorystudy_dir :Directory, Directorynobias_A :NIFTI-1 image, NIFTI-1 imagenobias_B :NIFTI-1 image, NIFTI-1 imagenative_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 imageborder_nobias_A :Transformation matrix, Transformation matrixnative_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 imageborder_nobias_B :Transformation matrix, Transformation matrixinv_final_disp_field_A_TO_B :GIS image, GIS imagefinal_disp_field_A_TO_B :GIS image, GIS imagesubjects_hierarchy :Text file, Text filesubjects_hierarchy_DARTEL :Text file, Text filedisplacement_field_A :GIS image, GIS imageinv_displacement_field_A :GIS image, GIS imagedisplacement_field_B :GIS image, GIS imageinv_displacement_field_B :GIS image, GIS imagecompo_To_Tal_A :Transformation matrix, Transformation matrixcompo_To_Tal_B :Transformation matrix, Transformation matrixflow_field_A :NIFTI-1 image, NIFTI-1 imageflow_field_B :NIFTI-1 image, NIFTI-1 image