The FLAME-accelerated signalling tool (FaST) for facile parallelisation of flexible agent-based models of cell signalling

Version 1.0
Fullstone, Gavin, 2021, "The FLAME-accelerated signalling tool (FaST) for facile parallelisation of flexible agent-based models of cell signalling", https://doi.org/10.18419/darus-1327, DaRUS, V1
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Description
This folder contains the FaST software, as well as all the raw data and tools to replicate this study. Paper_Data.pzfx: All raw and processed data in the main figures MCell_Model.tar.gz: The MCell model used in Figure 5 FaST_Software.tar.gz: The FaST software tool. Scripts to replicate the findings of the study are enclosed in the /example folder. Documentation and a tutorial for building the simulations is included in the /doc folder Visualiser_Config.xml: A configuration file for visualising model simulations, for use with the FLAME Visualiser Software Iteration_Data.tar.gz: Contains an example of raw outputs from a single ApoptoCell simulation
Subject Medicine, Health and Life Sciences
Related Publication The FLAME-accelerated signalling tool (FaST) for facile parallelisation of flexible agent-based models of cell signalling. npj Systems Biology and Applications (2020)6:10 doi: 10.1038/s41540-020-0128-x
Notes This study used the following software to generate data: FLAME LIBMBOARD 0.3.1, FLAME Xparser 0.17.0, FLAME GPU 1.4, Visual Studio Community 2015, GCC 4.2.1, OpenMPI 2.0.2, NVIDIA CUDA 9.0, MATLAB 2016b, MCell 3.4, Cellblender 1.1. All data analysis and statistics were performed using Graphad Prism 6.0h.
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CC BY 4.0

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FaST_Software.tar.gz
Gzip Archive - 22.4 MB
Published Feb 8, 2021
8 Downloads
MD5: d376ee3832fd7f69aa5df64b1a92d8ed
FaST Software
Iteration_Data.tar.gz
Gzip Archive - 176.8 MB
Published Feb 8, 2021
7 Downloads
MD5: 07af6f8fd541cff76eba7a76b831407d
Example iteration data from model
MCell_Model.tar.gz
Gzip Archive - 6.2 MB
Published Feb 8, 2021
10 Downloads
MD5: 26f67bc5fe080a35de8c0998f7722b48
MCell model used as a comparison in manuscript
Paper_Data.pzfx
application/x-graphpad-prism-pzfx - 6.3 MB
Published Feb 8, 2021
7 Downloads
MD5: 36090e76082a4433d3aa6f13d01fbc2b
All processed data from manuscript
Visualiser_Config.xml
XML - 38.0 KB
Published Feb 8, 2021
13 Downloads
MD5: adb80a8703013c41106515b7038891c0
Visualiser configurations file to be used with FLAME Visualiser Software
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