Automated Registration (AREG)

Automated Registration (AREG) is an extension for 3D Slicer to perform automatic registration either on IOS or CBCT files.

AREG Modules

AREG module provide a convenient user interface allowing to orient different type of scans:

• CBCT scan
• IOS scan

How does the module works?

3 Modes Available

• Orientation and Registration (to perform the entirety of the workflow automatically: Automatic Orientation, Registration, and Segmentation)
• Fully-Automated (to perform the Automatic Mask Generation, Registration and Segmentation)
• Semi-Automated (to perform the Automatic Registration and Segmentation)

Mode	Input
Orientation and Registration	Scans
Fully-Automated	Oriented Scans
Semi-Automated	Oriented Scans, Masks Segmentation Files

Input file:

Input Type	Input Extension Type
CBCT	.nii, .nii.gz, .gipl.gz, .nrrd, .nrrd.gz
IOS	.vtk

Test Files Available: You can either download them using the link or by using the Test Files button.

Module Selected	Download Link to Test Files	Information
Semi-CBCT	Test Files	Scan and Fiducial List for this Reference
Fully-CBCT	Test File	Only Scan
Semi-IOS	Test Files	Mesh and Fiducial List Reference
Fully-IOS	Test Files	Only Mesh Reference

Models Selection

For the Fully-Automated Mode, models are required as input, use the Download Models Button or follow the following instructions:

For CBCT (Details):

A Pre-Orientation and ALI_CBCT models are needed

For IOS:

Outputs Options

Let's Run it

Algorithm

The implementation is based on iterative closest point's algorithm to execute a landmark-based registration. Some preprocessing steps are done to make the orientation works better (and are described respectively in CBCT and IOS part)

ASO CBCT

Fully-Automated mode:

1. a deep learning model is used to predict head orientation and correct it. Models are available for download (Pre ASO CBCT Models)

2. a Landmark Identification Algorithm (ALI CBCT) is used to determine user-selected landmarks

3. an ICP transform is used to match both of the reference and the input file

For the Semi-Automated mode, only step 3 is used to match input landmarks with reference's ones.

ASO IOS

Semi-Automated mode:

• an ICP transfrom is used to macth both of the reference and the input file by using the landmark

Fully-Automated mode:

Description of the tool:

Acknowledgements

Nathan Hutin (University of Michigan), Luc Anchling (UoM), Felicia Miranda (UoM), Selene Barone (UoM), Marcela Gurgel (UoM), Najla Al Turkestani (UoM), Juan Carlos Prieto (University of North Carolina), Lucia Cevidanes (UoM)

License

It is covered by the Apache License, Version 2.0:

http://www.apache.org/licenses/LICENSE-2.0