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

Pranav Madhikar; Jan Åström; Jan Westerholm; Mikko Karttunen

doi:10.1016/j.cpc.2018.05.024

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

Pranav Madhikar, Jan Åström, Jan Westerholm, Mikko Karttunen

Forskningsoutput: Tidskriftsbidrag › Artikel › Vetenskaplig › Peer review

11 Citeringar (Scopus)

151 Nedladdningar (Pure)

Sammanfattning

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.

Originalspråk	Odefinierat/okänt
Sidor (från-till)	206–213
Tidskrift	Computer Physics Communications
Volym	232
DOI	https://doi.org/10.1016/j.cpc.2018.05.024
Status	Publicerad - 2018
MoE-publikationstyp	A1 Tidskriftsartikel-refererad

Åtkomst av dokument

10.1016/j.cpc.2018.05.024

cell_paper-cpc-revision-may-2018-final.pdfAccepterat manuskript från författare, 3,72 MBLicens: CC BY-NC-ND

http://urn.fi/URN:NBN:fi-fe2020100882493

Citera det här

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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.",

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AU - Madhikar, Pranav

AU - Åström, Jan

AU - Westerholm, Jan

AU - Karttunen, Mikko

PY - 2018

Y1 - 2018

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AB - 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.

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DO - 10.1016/j.cpc.2018.05.024

M3 - Artikel

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