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WebCM: A Web-Based Platform for Multiuser Individual-Based Modeling of Multicellular Microbial Populations and Communities

Lookup NU author(s): Dr Tim RudgeORCiD

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This work is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).

Abstract

© 2024 The Authors. Published by American Chemical Society. WebCM is a web platform that enables users to create, edit, run, and view individual-based simulations of multicellular microbial populations and communities on a remote compute server. WebCM builds upon the simulation software CellModeller in the back end and provides users with a web-browser-based modeling interface including model editing, execution, and playback. Multiple users can run and manage multiple simulations simultaneously, sharing the host hardware. Since it is based on CellModeller, it can utilize both GPU and CPU parallelization. The user interface provides real-time interactive 3D graphical representations for inspection of simulations at all time points, and the results can be downloaded for detailed offline analysis. It can be run on cloud computing services or on a local server, allowing collaboration within and between laboratories.

Publication metadata

Author(s): Philippou J, Yanez Feliu G, Rudge TJ

Publication type: Article

Publication status: Published

Journal: ACS Synthetic Biology

Year: 2024

Volume: 13

Issue: 6

Pages: 1952-1955

Print publication date: 21/06/2024

Online publication date: 14/05/2024

Acceptance date: 26/04/2024

Date deposited: 14/02/2025

ISSN (electronic): 2161-5063

Publisher: American Chemical Society

URL: https://doi.org/10.1021/acssynbio.3c00486

DOI: 10.1021/acssynbio.3c00486

Data Access Statement: All code, documentation, installation instructions, and userguide can be found at https://github.com/RudgeLab/WebCM.

PubMed id: 38743439

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