Onco*: An umbrella Python framework for modelling and simulation of oncological scenarios

IF 3.1 3区计算机科学 Q2 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS

Journal of Computational Science Pub Date : 2025-02-01 DOI:10.1016/j.jocs.2025.102533

Marlon Suditsch , Arndt Wagner , Tim Ricken

引用次数: 0

Abstract

The umbrella software Onco* provides a workflow for patient-specific tumour simulations. The general framework is exemplarily shown for brain tumours, where users are allowed to input medical image data or work with benchmark geometries. Three pre-processing Python packages generalise the magnetic resonance imaging series of the brain and segments the tumour and the heterogeneous microstructure of the tissue. The interpretation of collected information is followed by numerical simulations in a package, where users have the option to use pre-implemented model set-ups. These model set-ups can be customised, where each entity is editable, providing flexibility for ongoing development in the interdisciplinary field of tumour prediction. Two examples from a provided tutorial demonstrate the workflow and its capabilities from patient-specific and academic geometry input to potential tumour evolutions.

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来源期刊

Journal of Computational Science COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS-COMPUTER SCIENCE, THEORY & METHODS

CiteScore

5.50

自引率

3.00%

发文量

227

审稿时长

41 days

期刊介绍： Computational Science is a rapidly growing multi- and interdisciplinary field that uses advanced computing and data analysis to understand and solve complex problems. It has reached a level of predictive capability that now firmly complements the traditional pillars of experimentation and theory. The recent advances in experimental techniques such as detectors, on-line sensor networks and high-resolution imaging techniques, have opened up new windows into physical and biological processes at many levels of detail. The resulting data explosion allows for detailed data driven modeling and simulation. This new discipline in science combines computational thinking, modern computational methods, devices and collateral technologies to address problems far beyond the scope of traditional numerical methods. Computational science typically unifies three distinct elements: • Modeling, Algorithms and Simulations (e.g. numerical and non-numerical, discrete and continuous); • Software developed to solve science (e.g., biological, physical, and social), engineering, medicine, and humanities problems; • Computer and information science that develops and optimizes the advanced system hardware, software, networking, and data management components (e.g. problem solving environments).