Shaping a Collaborative, Sustainable, Accessible, and Reproducible Future for Computational Modeling

Guidon, M.; Kaiser, D.; Iavarone, E.; Anderegg, S.; Bisgaard, M.; Bujard, C.; Cassara, A.; Crespo-Valero, P.; Drobuliak, M.; Fasse, A.; Hrytsuk, Y.; Karimi, F.; Maiz, O.; Neagu, A.; Newton, T.; Ordonez, J.; Oetiker, T.; Pascual, I.; Querido, J.; Regel, S.; Steiner, M.; Van Geit, W.; Zhuang, K.; Weitz, A.; Chavannes, N.; Kuster, N.; Neufeld, E.

doi:10.1101/2025.06.12.656959

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bioRxiv · 10.1101/2025.06.12.656959

Shaping a Collaborative, Sustainable, Accessible, and Reproducible Future for Computational Modeling

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Abstract

The o2S2PARC platform is an open-source, extensible, and scalable cloud-based platform developed in the context of the U.S. National Institutes of Health SPARC program to support collaborative, sustainable, FAIR (findable, accessible, interoperable, reusable) and reproducible computational modeling and analysis. This publication presents the main features of o2S2PARC, its underlying approaches and philosophy, innovative aspects of the developed technologies, while also drawing attention to its rapid adoption. The paper showcases a variety of applications and use cases enabled by the platform. These include hybrid electromagnetic-electrophysiology simulations of neural interfaces, personalized brain and spinal cord stimulation planning, in silico device safety assessments, the training and application of AI systems (e.g., for model-predictive control and medical image segmentation), hybridized surrogate modeling and multi-objective optimization in high-dimensional parameter spaces, sensitive and unbiased validation of measurement devices, and interactive data analysis as paper supplements.

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Guidon, M., Kaiser, D., Iavarone, E., Anderegg, S., Bisgaard, M., Bujard, C., Cassara, A., Crespo-Valero, P., Drobuliak, M., Fasse, A., Hrytsuk, Y., Karimi, F., Maiz, O., Neagu, A., Newton, T., Ordonez, J., Oetiker, T., Pascual, I., Querido, J., Regel, S., Steiner, M., Van Geit, W., Zhuang, K., Weitz, A., Chavannes, N., Kuster, N., Neufeld, E.. 2025-06-12. Shaping a Collaborative, Sustainable, Accessible, and Reproducible Future for Computational Modeling. https://doi.org/10.1101/2025.06.12.656959

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