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

Tutkimustuotos: Lehtiartikkeli › Artikkeli › Tieteellinen › vertaisarvioitu

11 Sitaatiot (Scopus)

148 Lataukset (Pure)

Abstrakti

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.

Alkuperäiskieli	Ei tiedossa
Sivut	206–213
Julkaisu	Computer Physics Communications
Vuosikerta	232
DOI - pysyväislinkit	https://doi.org/10.1016/j.cpc.2018.05.024
Tila	Julkaistu - 2018
OKM-julkaisutyyppi	A1 Julkaistu artikkeli, soviteltu

Pääsy asiakirjaan

10.1016/j.cpc.2018.05.024

cell_paper-cpc-revision-may-2018-final.pdfHyväksytty kirjoittajan käsikirjoitus, 3,72 MBLisenssi: CC BY-NC-ND

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

Viittausmuodot

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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.",

author = "Pranav Madhikar and Jan {\AA}str{\"o}m and Jan Westerholm and Mikko Karttunen",

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T1 - CellSim3D: GPU accelerated software for simulations of cellular growth and division in three dimensions

AU - Madhikar, Pranav

AU - Åström, Jan

AU - Westerholm, Jan

AU - Karttunen, Mikko

PY - 2018

Y1 - 2018

N2 - 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.

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.

U2 - 10.1016/j.cpc.2018.05.024

DO - 10.1016/j.cpc.2018.05.024

M3 - Artikel

SN - 0010-4655

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JO - Computer Physics Communications

JF - Computer Physics Communications

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