3DTubularVoronoi: a Voronoi-Based Framework for Estimating Equilibrium Cellular Packing in 3D Tubular Epithelia
Guitou, L.; Serrano, E. T.; Conejero, J. A.; Buceta, J.
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Epithelial tube morphogenesis is fundamental to organ development and functioning, yet accurately modeling its intricate 3D organization and dynamics remains a challenge. In particular, current computational tools fail to capture the spontaneous emergence of non-transient scutoids, a geometric feature essential for accommodating curvature in epithelia. Here, we introduce 3DTubularVoronoi, a novel simulation framework for modeling epithelial tube morphogenesis and determining their stable cell packing organization depending on mechanical parameters. The model employs a Voronoi tessellation strategy combined with an energy minimization approach using the Metropolis-Hasting algorithm. 3DTubularVoronoi enables realistic epithelial tube simulations, accounting for scutoid formation and dynamic rearrangements. This tool provides an open-source, user-friendly solution for exploring gland morphogenesis and offering insights into developmental biology and tissue engineering. Availabilityhttps://github.com/TheSiMBioSysI2SysBio/3DTubularVoronoi
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