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MUSCLE3
MUSCLE3 is a coupling library for building multiscale simulations out of single-scale models.
22
mentions
4
contributors
Cite this software
Description
- Create multiscale simulations by coupling existing or new models together via the network
- Temporal and spatial scale separation, ensembles
- Central parameter settings with in-simulation override for e.g. Uncertainty Quantification, surrogate modelling
- YAML-based configuration language describing connections and settings
MUSCLE3 is the third incarnation of the MUSCLE Multiscale Coupling Library and Environment. It is developed by the e-MUSC project of the University of Amsterdam and the Netherlands eScience Center.
MUSCLE3 scales all the way from a simple model in a single Python file running on your laptop to a complex multiscale simulation comprising multiple models written in different programming languages running on an HPC machine. Existing models can be connected with minimal modification.
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Participating organisations
Reference papers
Mentions
Book section
5- 1.Author(s): Martin Golebiewski, Gerhard MayerPublished in Encyclopedia of Bioinformatics and Computational Biology by Elsevier in 2025, page: 321-33310.1016/b978-0-323-95502-7.00164-0
- 2.Author(s): Yehor Yudin, David Coster, Udo von Toussaint, Frank JenkoPublished in Lecture Notes in Computer Science, Computational Science – ICCS 2023 by Springer Nature Switzerland in 2023, page: 572-58610.1007/978-3-031-36027-5_45
- 3.Author(s): Piet Jarmatz, Sebastian Lerdo, Philipp NeumannPublished in Lecture Notes in Computer Science, Computational Science – ICCS 2023 by Springer Nature Switzerland in 2023, page: 535-54910.1007/978-3-031-36027-5_42
- 4.Author(s): Mehdi Roozmeh, Ivan KondovPublished in Lecture Notes in Computer Science, Computational Science – ICCS 2022 by Springer International Publishing in 2022, page: 69-8210.1007/978-3-031-08760-8_6
- 5.Author(s): Lourens E. Veen, Alfons G. HoekstraPublished in Lecture Notes in Computer Science, Computational Science – ICCS 2020 by Springer International Publishing in 2020, page: 425-43810.1007/978-3-030-50433-5_33
Journal articles
13- 1.Author(s): Cesar Guevara, Dennys Coronel, Byron Salazar, Jorge Salazar, Hugo Arias-FloresPublished in Life by MDPI AG in 2024, page: 73510.3390/life14060735
- 2.Author(s): Zejia Wang, Wanchen Zhang, Yangyan Zhou, Qiyan Zhang, Krishnanand P Kulkarni, Kalpalatha Melmaiee, Youwen Tian, Mei Dong, Zhaoxu Gao, Yanning Su, Hong Yu, Guohui Xu, Yadong Li, Hang He, Qikun Liu, Haiyue SunPublished in Horticulture Research by Oxford University Press (OUP) in 202410.1093/hr/uhae138
- 3.Author(s): Timo Ravensbergen, Luca Zabeo, Peter de Vries, L. Pangione, Wolfgang Treutterer, Gianmaria De Tommasi, Woong-ryol Lee, Taehyun Tak, Anze ZagarPublished in Fusion Engineering and Design by Elsevier BV in 2023, page: 11344010.1016/j.fusengdes.2023.113440
- 4.Author(s): Ishaan Desai, Erik Scheurer, Carina Bringedal, Benjamin UekermannPublished in Journal of Open Source Software by The Open Journal in 2023, page: 584210.21105/joss.05842
- 5.Author(s): Chuanren Wu, Pierre David, Emiliano Fable, Domenico Frattolillo, Luigi Emanuel Di Grazia, Massimiliano Mattei, Mattia Siccinio, Wolfgang Treutterer, Hartmut ZohmPublished in Fusion Science and Technology by Informa UK Limited in 2023, page: 766-77110.1080/15361055.2023.2234741
- 6.Author(s): Gerasimos Chourdakis, Kyle Davis, Benjamin Rodenberg, Miriam Schulte, Frédéric Simonis, Benjamin Uekermann, Georg Abrams, Hans-Joachim Bungartz, Lucia Cheung Yau, Ishaan Desai, Konrad Eder, Richard Hertrich, Florian Lindner, Alexander Rusch, Dmytro Sashko, David Schneider, Amin Totounferoush, Dominik Volland, Peter Vollmer, Oguz Ziya KoseomurPublished in Open Research Europe by F1000 Research Ltd in 2022, page: 5110.12688/openreseurope.14445.2
- 7.Author(s): Gerasimos Chourdakis, Kyle Davis, Benjamin Rodenberg, Miriam Schulte, Frédéric Simonis, Benjamin Uekermann, Georg Abrams, Hans-Joachim Bungartz, Lucia Cheung Yau, Ishaan Desai, Konrad Eder, Richard Hertrich, Florian Lindner, Alexander Rusch, Dmytro Sashko, David Schneider, Amin Totounferoush, Dominik Volland, Peter Vollmer, Oguz Ziya KoseomurPublished in Open Research Europe by F1000 Research Ltd in 2022, page: 5110.12688/openreseurope.14445.1
- 8.Author(s): Diana Suleimenova, Hamid Arabnejad, Wouter N. Edeling, David Coster, Onnie O. Luk, Jalal Lakhlili, Vytautas Jancauskas, Michal Kulczewski, Lourens Veen, Dongwei Ye, Pavel Zun, Valeria Krzhizhanovskaya, Alfons Hoekstra, Daan Crommelin, Peter V. Coveney, Derek GroenPublished in Journal of Computational Science by Elsevier BV in 2021, page: 10140210.1016/j.jocs.2021.101402
- 9.Author(s): Dongwei Ye, Anna Nikishova, Lourens Veen, Pavel Zun, Alfons G. HoekstraPublished in Reliability Engineering & System Safety by Elsevier BV in 2021, page: 10773410.1016/j.ress.2021.107734
- 10.Author(s): D. Groen, H. Arabnejad, V. Jancauskas, W. N. Edeling, F. Jansson, R. A. Richardson, J. Lakhlili, L. Veen, B. Bosak, P. Kopta, D. W. Wright, N. Monnier, P. Karlshoefer, D. Suleimenova, R. Sinclair, M. Vassaux, A. Nikishova, M. Bieniek, Onnie O. Luk, M. Kulczewski, E. Raffin, D. Crommelin, O. Hoenen, D. P. Coster, T. Piontek, P. V. CoveneyPublished in Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences by The Royal Society in 202110.1098/rsta.2020.0221
- 11.Author(s): D.P. Coster, R. Fischer, O. Hoenen, J. Lakhlili, O.O. Luk, R. Preuss, B.D. Scott, U. von Toussaint, the ASDEX Upgrade TeamPublished in Nuclear Fusion by IOP Publishing in 2021, page: 12606810.1088/1741-4326/ac359f
- 12.Author(s): D. Ye, L. Veen, A. Nikishova, J. Lakhlili, W. Edeling, O. O. Luk, V. V. Krzhizhanovskaya, A. G. HoekstraPublished in Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences by The Royal Society in 202110.1098/rsta.2020.0072
- 13.Author(s): Derek Groen, Jaroslaw Knap, Philipp Neumann, Diana Suleimenova, Lourens Veen, Kenneth LeiterPublished in Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences by The Royal Society in 2019, page: 2018014710.1098/rsta.2018.0147
Newspaper articles
1Presentations
1Contributors
Contact person
AH
Alfons Hoekstra
University of Amsterdam
JB
Joris Borgdorff
University of Amsterdam
Netherlands eScience Center
MS
Maarten Sebregts
Developer
Ignition Computing
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