Impact of Initialization on Intra-subject Pediatric Brain MR Image Registration: A Comparative Analysis between SyN ANTs and Deep Learning-Based Approaches

TL;DR

This paper compares traditional SyN ANTs and deep learning-based methods for pediatric brain MRI registration, highlighting that DL approaches are faster and slightly more accurate, but SyN ANTs remains robust without training.

Contribution

It provides a comprehensive comparison of SyN ANTs and DL-based registration methods in pediatric neuroimaging, emphasizing the impact of initialization and demonstrating the advantages of DL approaches.

Findings

DL methods slightly outperform SyN ANTs in Dice scores

DL with rigid and affine initializations significantly outperform SyN ANTs

Both methods struggle with large age intervals due to growth changes

Abstract

This study evaluates the performance of conventional SyN ANTs and learning-based registration methods in the context of pediatric neuroimaging, specifically focusing on intrasubject deformable registration. The comparison involves three approaches: without (NR), with rigid (RR), and with rigid and affine (RAR) initializations. In addition to initialization, performances are evaluated in terms of accuracy, speed, and the impact of age intervals and sex per pair. Data consists of the publicly available MRI scans from the Calgary Preschool dataset, which includes 63 children aged 2-7 years, allowing for 431 registration pairs. We implemented the unsupervised DL framework with a U-Net architecture using DeepReg and it was 5-fold cross-validated. Evaluation includes Dice scores for tissue segmentation from 18 smaller regions obtained by SynthSeg, analysis of log Jacobian determinants, and registration pro-rated training and inference times. Learning-based approaches, with or without linear initializations, exhibit slight superiority over SyN ANTs in terms of Dice scores. Indeed, DL-based implementations with RR and RAR initializations significantly outperform SyN ANTs. Both SyN ANTs and DL-based registration involve parameter optimization, but the choice between these methods depends on the scale of registration: network-based for broader coverage or SyN ANTs for specific structures. Both methods face challenges with larger age intervals due to greater growth changes. The main takeaway is that while DL-based methods show promise with faster and more accurate registrations, SyN ANTs remains robust and generalizable without the need for extensive training, highlighting the importance of method selection based on specific registration needs in the pediatric context. Our code is available at https://github.com/neuropoly/pediatric-DL-registration