The FLAME-accelerated signalling tool (FaST) for facile parallelisation of flexible agent-based models of cell signalling (ICPSR doi:10.18419/darus-1327)

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Part 1: Document Description
Part 2: Study Description
Part 5: Other Study-Related Materials
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Document Description

Citation

Title:

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

Identification Number:

doi:10.18419/darus-1327

Distributor:

DaRUS

Date of Distribution:

2021-02-08

Version:

1

Bibliographic Citation:

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

Study Description

Citation

Title:

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

Identification Number:

doi:10.18419/darus-1327

Authoring Entity:

Fullstone, Gavin (Universität Stuttgart)

Distributor:

DaRUS

Access Authority:

Fullstone, Gavin

Depositor:

Fullstone, Gavin

Date of Deposit:

2021-02-04

Study Scope

Keywords:

Medicine, Health and Life Sciences

Abstract:

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

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.

Methodology and Processing

Sources Statement

Data Access

Notes:

CC BY Waiver

Other Study Description Materials

Related Publications

Citation

Identification Number:

10.1038/s41540-020-0128-x

Bibliographic Citation:

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

Other Study-Related Materials

Label:

FaST_Software.tar.gz

Text:

FaST Software

Notes:

application/x-gzip

Other Study-Related Materials

Label:

Iteration_Data.tar.gz

Text:

Example iteration data from model

Notes:

application/x-gzip

Other Study-Related Materials

Label:

MCell_Model.tar.gz

Text:

MCell model used as a comparison in manuscript

Notes:

application/x-gzip

Other Study-Related Materials

Label:

Paper_Data.pzfx

Text:

All processed data from manuscript

Notes:

application/x-graphpad-prism-pzfx

Other Study-Related Materials

Label:

Visualiser_Config.xml

Text:

Visualiser configurations file to be used with FLAME Visualiser Software

Notes:

text/xml