Content deleted Content added
Polo Oceano (talk | contribs) m →Simulation frameworks: added entry |
Polo Oceano (talk | contribs) m →Simulation frameworks: added info |
||
Line 63:
|C++, Python
|OpenMP
|-
|[https://www.hoehme.com/software/tisim TiSim] (formerly CellSys)
Line 102 ⟶ 93:
|IBCell
|Immersed Boundary
|2D
|http://rejniak.net/RejniakLab/LabsTools.html
|Yes
|Yes
|Matlab
|
|-
Line 119 ⟶ 110:
|-
|MecaGen<ref>{{cite journal |vauthors=Delile J, Herrmann M, Peyriéras N, Doursat R |date=January 2017 |title=A cell-based computational model of early embryogenesis coupling mechanical behaviour and gene regulation |journal=Nature Communications |volume=8 |pages=13929 |bibcode=2017NatCo...813929D |doi=10.1038/ncomms13929 |pmc=5264012 |pmid=28112150}}</ref>
|Center/agent-based
|3D
|https://github.com/juliendelile/MECAGEN
|Yes
|Yes
|C++
|CUDA, GPU
|-
|PhysiCell<ref>{{cite journal |vauthors=Ghaffarizadeh A, Heiland R, Friedman SH, Mumenthaler SM, Macklin P |date=February 23, 2018 |title=PhysiCell: an Open Source Physics-Based Cell Simulator for 3-D Multicellular Systems |journal=PLOS Computational Biology |volume=14 |issue=2 |pages=e1005991 |bibcode=2018PLSCB..14E5991G |doi=10.1371/journal.pcbi.1005991 |pmc=5841829 |pmid=29474446}}</ref>
|Center-based, ODE
|3D
|https://github.com/MathCancer/PhysiCell
|Yes
|Yes
|C++
|OpenMP
|-
|Biocellion<ref>{{cite journal |vauthors=Kang S, Kahan S, McDermott J, Flann N, Shmulevich I |date=November 2014 |title=Biocellion: accelerating computer simulation of multicellular biological system models |journal=Bioinformatics |volume=30 |issue=21 |pages=3101–3108 |doi=10.1093/bioinformatics/btu498 |pmc=4609016 |pmid=25064572}}</ref><ref>{{Cite web |title=biocellion |url=https://biocellion.com/ |access-date=2022-04-05 |website=biocellion |language=en-US}}</ref>
| |||