CellSim3D: GPU accelerated software for simulations of cellular growth and division in three dimensions

Pranav Madhikar, Jan Åström, Jan Westerholm, Mikko Karttunen

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    Abstract

    We present a new open source software package CellSim3D for computer simulations of mechanical aspects (that is, biochemical details are not accounted for) of cell division in three dimensions. It is also possible to use the software in the mode with cell division and growth turned off which allows for simulations of soft colloidal matter. The code is based on a previously introduced two dimensional mechanical model for cell division which is extended to full 3D. CellSim3D is written in C/C++ and CUDA and allows for simulations of 100,000 cells using standard desktop computers.

    Original languageUndefined/Unknown
    Pages (from-to)206–213
    JournalComputer Physics Communications
    Volume232
    DOIs
    Publication statusPublished - 2018
    MoE publication typeA1 Journal article-refereed

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