SIMPROV: Provenance capturing for simulation studies.
Improving interpretability and reusability has become paramount for modeling and simulation studies. Provenance, which encompasses information about the entities, activities, and agents involved in producing a model, experiment, or data, is pivotal in achieving this goal. However, capturing provenan...
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| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2025-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0327607 |
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| _version_ | 1849704340463288320 |
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| author | Andreas Ruscheinski Anja Wolpers Philipp Henning Pia Wilsdorf Adelinde M Uhrmacher |
| author_facet | Andreas Ruscheinski Anja Wolpers Philipp Henning Pia Wilsdorf Adelinde M Uhrmacher |
| author_sort | Andreas Ruscheinski |
| collection | DOAJ |
| description | Improving interpretability and reusability has become paramount for modeling and simulation studies. Provenance, which encompasses information about the entities, activities, and agents involved in producing a model, experiment, or data, is pivotal in achieving this goal. However, capturing provenance in simulation studies presents a tremendous challenge due to the diverse software systems employed by modelers and the various entities and activities to be considered. Existing methods only automatically capture partial provenance from individual software systems, leaving gaps in the overall story of a simulation study. To address this limitation, we introduce a lightweight method that can record the provenance of complete simulation studies by monitoring the modeler in their familiar yet heterogeneous work environment, posing as few restrictions as possible. The approach emphasizes a clear separation of concerns between provenance capturers, which collect data from the diverse software systems used, and a provenance builder, which assembles this information into a coherent provenance graph. Furthermore, we provide a web interface that enables modelers to enhance and explore their provenance graphs. We showcase the practicality of SIMPROV through two cell biological case studies. |
| format | Article |
| id | doaj-art-4c52477d402a4befa9988d6cc2682549 |
| institution | DOAJ |
| issn | 1932-6203 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-4c52477d402a4befa9988d6cc26825492025-08-20T03:16:47ZengPublic Library of Science (PLoS)PLoS ONE1932-62032025-01-01207e032760710.1371/journal.pone.0327607SIMPROV: Provenance capturing for simulation studies.Andreas RuscheinskiAnja WolpersPhilipp HenningPia WilsdorfAdelinde M UhrmacherImproving interpretability and reusability has become paramount for modeling and simulation studies. Provenance, which encompasses information about the entities, activities, and agents involved in producing a model, experiment, or data, is pivotal in achieving this goal. However, capturing provenance in simulation studies presents a tremendous challenge due to the diverse software systems employed by modelers and the various entities and activities to be considered. Existing methods only automatically capture partial provenance from individual software systems, leaving gaps in the overall story of a simulation study. To address this limitation, we introduce a lightweight method that can record the provenance of complete simulation studies by monitoring the modeler in their familiar yet heterogeneous work environment, posing as few restrictions as possible. The approach emphasizes a clear separation of concerns between provenance capturers, which collect data from the diverse software systems used, and a provenance builder, which assembles this information into a coherent provenance graph. Furthermore, we provide a web interface that enables modelers to enhance and explore their provenance graphs. We showcase the practicality of SIMPROV through two cell biological case studies.https://doi.org/10.1371/journal.pone.0327607 |
| spellingShingle | Andreas Ruscheinski Anja Wolpers Philipp Henning Pia Wilsdorf Adelinde M Uhrmacher SIMPROV: Provenance capturing for simulation studies. PLoS ONE |
| title | SIMPROV: Provenance capturing for simulation studies. |
| title_full | SIMPROV: Provenance capturing for simulation studies. |
| title_fullStr | SIMPROV: Provenance capturing for simulation studies. |
| title_full_unstemmed | SIMPROV: Provenance capturing for simulation studies. |
| title_short | SIMPROV: Provenance capturing for simulation studies. |
| title_sort | simprov provenance capturing for simulation studies |
| url | https://doi.org/10.1371/journal.pone.0327607 |
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