Hybrid Automata Library: A flexible platform for hybrid modeling with real-time visualization.
Journal
PLoS computational biology
ISSN: 1553-7358
Titre abrégé: PLoS Comput Biol
Pays: United States
ID NLM: 101238922
Informations de publication
Date de publication:
03 2020
03 2020
Historique:
received:
23
01
2019
accepted:
06
01
2020
revised:
30
03
2020
pubmed:
11
3
2020
medline:
27
6
2020
entrez:
11
3
2020
Statut:
epublish
Résumé
The Hybrid Automata Library (HAL) is a Java Library developed for use in mathematical oncology modeling. It is made of simple, efficient, generic components that can be used to model complex spatial systems. HAL's components can broadly be classified into: on- and off-lattice agent containers, finite difference diffusion fields, a GUI building system, and additional tools and utilities for computation and data collection. These components are designed to operate independently and are standardized to make them easy to interface with one another. As a demonstration of how modeling can be simplified using our approach, we have included a complete example of a hybrid model (a spatial model with interacting agent-based and PDE components). HAL is a useful asset for researchers who wish to build performant 1D, 2D and 3D hybrid models in Java, while not starting entirely from scratch. It is available on GitHub at https://github.com/MathOnco/HAL under the MIT License. HAL requires the Java JDK version 1.8 or later to compile and run the source code.
Identifiants
pubmed: 32155140
doi: 10.1371/journal.pcbi.1007635
pii: PCOMPBIOL-D-19-00132
pmc: PMC7105119
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
e1007635Subventions
Organisme : NCI NIH HHS
ID : U01 CA202958
Pays : United States
Organisme : NCI NIH HHS
ID : U54 CA193489
Pays : United States
Organisme : NCI NIH HHS
ID : UH2 CA203781
Pays : United States
Déclaration de conflit d'intérêts
No authors have competing interests.
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