Parallel STEPS: Large scale stochastic spatial reaction-diffusion simulat. (Chen & De Schutter 2017)

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Accession:225089
" ... In this paper, we describe an MPI-based, parallel operator-splitting implementation for stochastic spatial reaction-diffusion simulations with irregular tetrahedral meshes. The performance of our implementation is first examined and analyzed with simulations of a simple model. We then demonstrate its application to real-world research by simulating the reaction-diffusion components of a published calcium burst model in both Purkinje neuron sub-branch and full dendrite morphologies..."
Reference:
1 . Chen W, De Schutter E (2017) Parallel STEPS: Large Scale Stochastic Spatial Reaction-Diffusion Simulation with High Performance Computers Front. Neuroinform. 11:13
Model Information (Click on a link to find other models with that property)
Model Type:
Brain Region(s)/Organism: Cerebellum;
Cell Type(s): Cerebellum Purkinje cell;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: STEPS;
Model Concept(s): Bursting; Reaction-diffusion; Calcium dynamics; Methods;
Implementer(s): Chen, Weiliang [w.chen at oist.jp];
Search NeuronDB for information about:  Cerebellum Purkinje cell;
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Chen_Front_2017
purkinje_model
simple_model
readme.txt
                            
This is the readme for the Simulation Scripts for 

Chen W and De Schutter E (2017) Parallel STEPS: Large Scale Stochastic
Spatial Reaction-Diffusion Simulation with High Performance
Computers. Front. Neuroinform. 11:13. doi: 10.3389/fninf.2017.00013

contact: w.chen at oist.jp

Scripts in simple_model directory can be used to reproduce data for
section Reaction-Diffusion Simulation with Simple Model and Geometry.
Scripts in purkinje_model directory can be used to reproduce data for
section Large Scale Reaction-Diffusion Simulation with Real-World
Model and Geometry.

These scripts require the installation of STEPS 3.0.0 with MPI
support, STEPS can be downloaded from steps.sourceforge.net.

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