Final deformation applied on mesh

This tool enables to deform surfaces with the final deformation (DISCO, DARTEL, DISCO+DARTEL) toward a common space or from subjectA space to subjectB space created with Create DISCO+DARTEL deformation field toward the common space or Create DISCO+DARTEL deformation field from subjectA to subjectB.

1. Choose the type of the study.

2. Select the study directory of the experiment.

3. Choose the type of the surface to deform.

If mesh to be considered have been obtained from subjects pre-processed before the Morphologist processing (add border to initial data), and if the final deformation field have been estimated from these initial data, choose Other in choice_native_data_in button and enter the added translation in border_native_data_in field.

4. Choose the destination space CommonSpace or AnotherSubject.

5. Enter the name of the DARTEL Template.

6. If AnotherSubject, select the destination subject in data_dest (and if several subjects in data_in, repeat the destination subject)). Choose whether the destination spaces considered to estimate the final deformation fields were those of subjects that have been directly proceeded with Morphologist (choice_native_data_dest = Morphologist nobias) or those of native data (choice_native_data_dest = Other).

Parameters

study_type: Choice ( input )

Type of the study

template_dir: DARTEL Template Dir ( input )

Directory of the DARTEL experiment

study_dir: DISCO Study Dir ( optional, input )

Study directory of the experiment

subjects_hierarchy: Save Subjects Hierarchy DISCO ( optional, input )

mesh_type_to_deformed: OpenChoice ( input )

mesh: ListOf( Mesh ) ( input )

choice_native_data_in: 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)

border_native_data_in: ListOf( Transformation matrix ) ( optional, input )

translation added to initial data to be processed in Morphologist

final_space: Choice ( input )

Destination space

data_dest: ListOf( T1 MRI Bias Corrected ) ( optional, input )

destination subject.

if several subjects in data_in, repeat the destination subject.

choice_native_data_dest: Choice ( optional, 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)

final_disp_field: ListOf( FFD Field defData DISCO DARTEL ) ( input )

vectorinterpolation: Choice ( input )

interpolation of vector field

mesh_deformed: ListOf( Mesh ) ( output )

Technical information

Toolbox : Disco

User level : 1

Identifier : final_deformation_mesh

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

Supported file formats :

template_dir :

Directory, Directory

study_dir :

Directory, Directory

subjects_hierarchy :

Text file, Text file

mesh :

GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh

border_native_data_in :

Transformation matrix, Transformation matrix

data_dest :

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

final_disp_field :

GIS image, GIS image

mesh_deformed :

GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh