CASToR: a generic data organization and processing code framework for multi-modal and multi-dimensional tomographic reconstruction

Thibaut Merlin (1) , Simon Stute (2) , Didier Benoit (1) , Julien Bert (1) , Thomas Carlier (3) , Claude Comtat (2) , Marina Filipovic (2) , Frédéric Lamare (4) , Dimitris Visvikis (1)

1 LaTIM - Laboratoire de Traitement de l'Information Medicale
2 IMIV - U1023 - ERL9218 - Imagerie Moléculaire in Vivo
3 CRCINA-ÉQUIPE 13 - Nuclear Oncology
4 INCIA - Institut de Neurosciences cognitives et intégratives d'Aquitaine

In tomographic medical imaging (PET, SPECT, CT), differences in data acquisition and organization are a major hurdle for the development of tomographic reconstruction software. The implementation of a given reconstruction algorithm is usually limited to a specific set of conditions, depending on the modality, the purpose of the study, the input data, or on the characteristics of the reconstruction algorithm itself. It causes restricted or limited use of algorithms, differences in implementation, code duplication, impractical code development, and difficulties for comparing different methods. This work attempts to address these issues by proposing a unified and generic code framework for formatting, processing and reconstructing acquired multi-modal and multi-dimensional data. The proposed iterative framework processes in the same way elements from list-mode (i.e. events) and histogrammed (i.e. sinogram or other bins) data sets. Each element is processed separately, which opens the way for highly parallel execution. A unique iterative algorithm engine makes use of generic core components corresponding to the main parts of the reconstruction process. Features that are specific to different modalities and algorithms are embedded into specific components inheriting from the generic abstract components. Temporal dimensions are taken into account in the core architecture. The framework is implemented in an open-source C++ parallel platform, called CASToR (customizable and advanced software for tomographic reconstruction). Performance assessments show that the time loss due to genericity remains acceptable, being one order of magnitude slower compared to a manufacturer's software optimized for computational efficiency for a given system geometry. Specific optimizations were made possible by the underlying data set organization and processing and allowed for an average speed-up factor ranging from 1.54 to 3.07 when compared to more conventional implementations. Using parallel programming, an almost linear speed-up increase (factor of 0.85 times number of cores) was obtained in a realistic clinical PET setting. In conclusion, the proposed framework offers a substantial flexibility for the integration of new reconstruction algorithms while maintaining computation efficiency.

Mots clés: SPECT; CT; tomographic; image reconstruction; software; multimodal; PET

Domaines: Imagerie médicale; Traitement du signal et de l'image [eess.SP]

Thibaut Merlin, Simon Stute, Didier Benoit, Julien Bert, Thomas Carlier, et al.. CASToR: a generic data organization and processing code framework for multi-modal and multi-dimensional tomographic reconstruction. Physics in Medicine and Biology, 2018, 63 (18), pp.185005. ⟨10.1088/1361-6560/aadac1⟩. ⟨hal-01935073⟩