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== Mission ==
== Mission ==
As mathematical model data, software and workflows can be applied in a wide range of disciplines from natural to life sciences and the humanities, the digitization of research data is seen as the main stronghold of mathematics. This together with the standardization of data within the NFDI framework would emulate the FAIR principles and allow a dependable platform from which other disciplines could benefit from. Working from case studies, TA4 aims to work together with interdisciplinary partners and other NFDI consortia to develop interdisciplinary workflows, standardize mathematical descriptions and create a platform for exchange.
As mathematical models, software and workflows can be applied to a wide range of disciplines from natural and life sciences to the humanities, it is crucial to reflect the disciplines needs for FAIR research data management and standardized descriptions of these artifacts. Starting from case studies, TA4 aims at working together with interdisciplinary partners and other NFDI consortia to develop interdisciplinary workflows, standardize mathematical descriptions and create a platform for exchange. These activities, together with the standardization of data within the NFDI framework, is intended to emulate the FAIR principles and provides a dependable platform from which other disciplines could benefit.


== Use Cases / Workflows ==
Standardization of mathematical descriptions for us means the creation of a database for mathematical models. This development is in progress and is called [[MathModDB]].


Please find a list of interdisciplinary use cases our work is based on. Also see a list in alphabetical order [https://portal.mardi4nfdi.de/wiki/Category:Workflow here]
Moreover, [[MaRDMO]] will function as an interface, enabling researchers from diverse disciplines to document their interdisciplinary workflows and mathematical models through the Research Data Management Organiser (RDMO).


=== Engineering ===
== Use Cases / Workflows ==
Lead: [https://www.ians.uni-stuttgart.de/cmcs/research/ USTUTT]
The documentation of interdisciplinary workflows reflects Measure M4.1. of the MaRDI research program. It is a crucial part to understand the requirements of the applied sciences with respect to their mathematical grounding. Moreover, it serves as a predecessing step toward the development of a mathematical standardization. Please find a list of interdisciplinary use cases our work is based on here: [https://portal.mardi4nfdi.de/wiki/Portal/TA4_Workflows  Workflows]
 
* [[XRCT | X-ray Computed Tomography]]
 
=== Material Science ===  
Lead: [https://www.ians.uni-stuttgart.de/cmcs/research/ USTUTT]
 
=== High-Performance Computing ===
Lead: [https://www.ians.uni-stuttgart.de/cmcs/research/ USTUTT]
 
* [[COMPARING_PARTITIONED_COUPLING_VS._MONOLITHIC_BLOCK_PRECONDITIONING_FOR_SOLVING_STOKES-DARCY_SYSTEMS | Comparing Solvers for Darcy Stokes Systems]]
** [[MONOLITHIC_APPROACH_FOR_SOLVING_STOKES-DARCY_SYSTEMS | Monolithic Approach for Solving Stokes-Darcy Systems]]
** [[PARTITIONED_COUPLING_FOR_SOLVING_STOKES-DARCY_SYSTEMS | Partitioned Coupling for Solving Stokes-Darcy Systems]]
* Multi-physics Multi-scale Simulation of Skeletal Muscle Activation (in preparation)
 
=== Theoretical and Bio-Chemistry ===
Lead: [https://www.zib.de/ ZIB]
* [[ Non-negative Matrix Factorization for Time-Resolved Raman Spectroscopy Data |  Non-negative Matrix Factorization for Time-Resolved Raman Spectroscopy Data]]
 
=== Digital Humanities ===
Lead: [https://www.zib.de/ ZIB]
* [[Boolean Algebra Analysis of Egyption Excavation Pieces | Boolean Algebra Analysis of Egyption Excavation Pieces]]
* [[Romanization spreading on historical interregional networks in Northern Tunisia | Romanization spreading on historical interregional networks in Northern Tunisia]]
* [[Private:Tensor Correspondance Analysis of Egyption Excavation Pieces | Private:Tensor Correspondance Analysis of Egyption Excavation Pieces]]
 
=== Digital Catalysis ===
Lead: MPI Magdeburg
 
=== Optimization and Computer Algebra in Particle Physics and Heavy Ion Research ===
Lead: [https://www.wias-berlin.de/ WIAS]


=== Neurosciences ===
Also see a list in alphabetical order [https://portal.mardi4nfdi.de/wiki/Category:Workflow here]
Lead: [https://www.wias-berlin.de/ WIAS]


=== Numerical Quantum Dynamics ===
== MathModDB - A database for mathematical models ==
Lead:  [https://www.wias-berlin.de/ WIAS]
As models are a crucial step in the model-simulation pipeline, and mathematical standardization is elementary in our mission statement, the development of a database for mathematical models is justified and reflects Measure M4.2. in the MaRDI research program. The database will be set up as an ontology / knowledge graph, called [[MathModDB]].
# [[Numerical quantum dynamics using WavePacket: I. Closed quantum systems and discrete variable representations|Closed quantum systems and discrete variable representations]]
# [[Numerical quantum dynamics using WavePacket: II. Open quantum systems, optimal control, and model reduction|Open quantum systems, optimal control, and model reduction]]
# [[Numerical quantum dynamics using WavePacket: III. Quantum‐classical simulations and surface hopping trajectories|Quantum‐classical simulations and surface hopping trajectories]] (coming soon)


=== Decision Science ===
== MaRDMO - A Plugin for the Research Data Management Organiser==
Lead: [https://www.itwm.fraunhofer.de/en/departments/mf.html ITWM]
* [[Private:INCLUDING_HERE_TRAFFIC_DATA_IN_VMCSIMULATION | Including HERE traffic data in VMCSimulation]]


=== Data-driven Mathematics, AI and Machine Learning ===
MaRDMO is a plugin designed to streamline the documentation of workflows (Measure M4.1). Primarily utilized for Model-Simulation-Optimization workflows in the numerical domain, MaRDMO also exhibits versatility in accommodating workflows from other domains such as algebra. Integrated within RDMO, it offers a structured questionnaire guiding researchers through the documentation process. By fetching additional information from established sources, MaRDMO ensures comprehensive documentation while minimizing duplication of effort. Its seamless integration with RDMO enhances usability, allowing for the semi-automatic generation of workflow documentation. Recently, the MathModDB ontology (Measure M4.2) was integrated into MaRDMO to enhance the documentation of mathematical models within the workflows, further improving its functionality.
Lead: [https://www.itwm.fraunhofer.de/en/departments/mf.html ITWM]
* [[Private:REALTIME_CAPABLE_SOIL_SIMULATION_BASED_ON_HYBRID_MODELS | Realtime capable soil simulation based on hybrid models]]
 
== Workshops ==
 
* [https://www.ada.fu-berlin.de/ada-labs/dihma-lab/index.html Digital Humanities meet Mathematics] (20/21.09.2022, Berlin)


Click [https://portal.mardi4nfdi.de/wiki/MaRDMO  here] to get further information.


== Materials, HowTos, Tutorials, ... ==
== Materials, HowTos, Tutorials, ... ==
Line 72: Line 32:
* [https://www.itwm.fraunhofer.de/en/departments/mf/staff/jochen-fiedler.html Jochen Fiedler]
* [https://www.itwm.fraunhofer.de/en/departments/mf/staff/jochen-fiedler.html Jochen Fiedler]
* [https://www.itwm.fraunhofer.de/en/departments/mf/staff/christine-biedinger.html Christine Biedinger]
* [https://www.itwm.fraunhofer.de/en/departments/mf/staff/christine-biedinger.html Christine Biedinger]
<br>
University of Stuttgart
University of Stuttgart
* [https://www.ians.uni-stuttgart.de/institute/team/Goeddeke-00003/ Dominik Goeddeke]
* [https://www.ians.uni-stuttgart.de/institute/team/Goeddeke-00003/ Dominik Goeddeke]
* [https://www.izus.uni-stuttgart.de/personen/Iglezakis-00001/ Dorothea Iglezakis]
* [https://www.izus.uni-stuttgart.de/personen/Iglezakis-00001/ Dorothea Iglezakis]
* [https://www.ians.uni-stuttgart.de/institute/team/Schembera-00001/ Björn Schembera]
* [https://www.ians.uni-stuttgart.de/institute/team/Schembera-00001/ Björn Schembera]
<br>
Weierstrass-Institute for Applied Analysis and Stochastics, Berlin
Weierstrass-Institute for Applied Analysis and Stochastics, Berlin
* [https://www.wias-berlin.de/~koprucki Thomas Koprucki]
* [https://www.wias-berlin.de/~koprucki Thomas Koprucki]
* [https://www.wias-berlin.de/~schmidt Burkhard Schmidt]
* [https://www.wias-berlin.de/~schmidt Burkhard Schmidt]
* [https://www.wias-berlin.de/~maltsi/ Anieza Maltsi]
* [https://www.wias-berlin.de/~shehu/ Aurela Shehu]
<br>


Zuse Institute Berlin
Zuse Institute Berlin
* [https://www.zib.de/members/weber Marcus Weber]
* [https://www.zib.de/members/weber Marcus Weber]
* [https://www.zib.de/members/reidelbach Marco Reidelbach]
* [https://www.zib.de/members/reidelbach Marco Reidelbach]
== Publications ==
Publications of TA4 personnel related to MaRDI
=== 2022 ===
Benner P., Burger, M., Göddeke D., Görgen, C., Himpe, C., Hintermüller, M., Heiland, J., Koprucki T., Ohlberger, M., Rave S., Reidelbach M., Saak, J., Schöbel, A., Tabelow, K., and Weber, M., 2022. Die mathematische Forschungsdateninitiative in der NFDI: MaRDI. GAMM-Rundbrief, 1, pp.40-43.
Reidelbach, M., Weber, M. MaRDI - The mathematical Research Data Initiative. Aktionstag Forschungsdaten FU Berlin. [https://doi.org/10.5281/zenodo.7397588 https://doi.org/10.5281/zenodo.7397588]
=== 2023 ===
Boege, T., Fritze, R., Görgen, C., Hanselman, J., Iglezakis, D., Kastner, L., Koprucki, T., Krause, T.H., Lehrenfeld, C., Polla, S. and Reidelbach, M., 2023. Data management planning in the German mathematical community. European Mathematical Society Magazine, (130), pp.40-47. [https://doi.org/10.4171/mag/152 https://doi.org/10.4171/mag/152]
MaRDI Consortium, 2023. Research Data Management Planning in Mathematics. [https://doi.org/10.5281/zenodo.10018246 https://doi.org/10.5281/zenodo.10018246]
Reidelbach, M., Ferrer. E and Weber M., 2023. MaRDMO Plugin - Document and Retrieve Workflows Using the MaRDI Portal. In Proceedings of the Conference on Research Data Infrastructure (Vol. 1). [https://doi.org/10.52825/cordi.v1i.254 https://doi.org/10.52825/cordi.v1i.254] 
Schembera, B., Wübbeling, F., Kleikamp, H., Biedinger, C., Fiedler, J., Reidelbach, M., Shehu, A., Schmidt, B., Koprucki, T., Iglezakis, D. and Göddeke, D., 2023. Ontologies for Models and Algorithms in Applied Mathematics and Related Disciplines. arXiv preprint arXiv:[https://arxiv.org/pdf/2310.20443 2310.20443].
Schembera, B., Riethmüller, C. and Göddeke, D., [https://www.simtech2023.uni-stuttgart.de/documents/Theme-4/Schembera-Bjoern.pdf Enabling FAIR Data in Computational Science, Engineering and Mathematics through Knowledge Graphs.]
Schembera, B., Wübbeling, F., Koprucki, T., Biedinger, C., Reidelbach, M., Schmidt, B., Göddeke, D. and Fiedler, J., 2023, September. Building Ontologies and Knowledge Graphs for Mathematics and its Applications. In Proceedings of the Conference on Research Data Infrastructure (Vol. 1). [https://doi.org/10.52825/cordi.v1i.255 https://doi.org/10.52825/cordi.v1i.255]
=== 2024 ===
Diederichs, K., Krause, C., Lemaire, M., Reidelbach, M. and Windeck, J., 2024. A Vision for Data Management Plans in the NFDI. [https://doi.org/10.5281/zenodo.10570654 https://doi.org/10.5281/zenodo.10570654]
Reidelbach, M., Schembera, B., Weber, M. (2024). Towards a FAIR Documentation of Workflows and Models in Applied Mathematics. In: Buzzard, K., Dickenstein, A., Eick, B., Leykin, A., Ren, Y. (eds) Mathematical Software – ICMS 2024. ICMS 2024. Lecture Notes in Computer Science, vol 14749. Springer, Cham. https://doi.org/10.1007/978-3-031-64529-7_27
== Talks ==
Talks given by TA4 personnel related to MaRDI
=== 2022 ===
Reidelbach, M., 21.09.2022. Mathematical Research Data Initiative. Talk @ "Digital Humanities meet Mathematics" Workshop, Berlin.
=== 2023 ===
Reidelbach, M., 29.03.2023. MaRDMO - An RDMO plugin to populate and query the MaRDI Knowledge Graph. Talk @ 9th RDMO Community Meeting, Online.
Reidelbach, M., 17.04.2023. MaRDMO - An RDMO plugin to document and query MSO Workflows using the MaRDI Knowledge Graph. Talk @ Leibniz MMS Days, Potsdam. [https://doi.org/10.5446/62069 https://doi.org/10.5446/62069]
Reidelbach, M., 26.05.2023. MaRDMO - An RDMO plugin to populate and query the MaRDI Knowledge Graph. Talk @ Meeting of 'Data Management Planning' working group of NFDI Section Common Infrastructures, Online.
Reidelbach, M., 29.06.2023. MaRDMO - Document and Retrieve Interdisciplinary Workflows Using the MaRDI Portal. Workshop @ NFDI-MATWREK Conference, Siegburg.
Reidelbach, M., 25.09.2023.  MaRDMO Plugin - Document and Retrieve Interdisciplinary Workflows Using the MaRDI Portal. Talk @ MaRDI Mini-Symposium in DMV, Illmenau.
Weber, M., 26.09.2023. MaRDMO – An RDMO plugin to populate and query the MaRDI Knowledge Graph. Talk @ KLAIM, Kaiserslautern.
Reidelbach, M., 27.09.2023.  MaRDMO Plugin - Document and Retrieve Interdisciplinary Workflows Using the MaRDI Portal. Talk @ NFDI4Ing Conference, Online. [https://doi.org/10.5281/zenodo.8388577 https://doi.org/10.5281/zenodo.8388577]
Reidelbach, M., 10.10.2023. MaRDMO – Document and Query Interdisciplinary Workflows Using the MaRDI Portal. Talk @ "Maths meets Information Specialists" Workshop, Leipzig.
=== 2024 ===
Reidelbach, M., 12.03.2024. Mathematical Research Data Initiative - Vision and Services. Talk @ Math+ Conference "Interpretations, Explanations, and Knowledge Gain", Berlin.
Reidelbach, M., 24.07.2024. Towards a FAIR Documentation of Workflows and Models in Applied Mathematics. Talk @ ICMS 2024, Durham, England.
== Workshops ==
Workshops that have been co-organized by TA4 personnel
* [https://www.ada.fu-berlin.de/ada-labs/dihma-lab/index.html Digital Humanities meet Mathematics] (20/21.09.2022, Berlin)
* Was könn(t)en DMPs eigentlich alles leisten? (14.06.2023, Online)
* [https://www.mis.mpg.de/events/series/maths-meets-information-specialists Math meets Information Specialists] (9.-11.10.2023, Leipzig)
* [https://www.nfdi.de/tf-ethik-workshop-februar-2024/ Finding the E in ELSA. Exploring Ethical Challenges across the NFDI] (28.2.2024, online)

Revision as of 14:36, 25 August 2024

Task Area 4: Cooperation with Other Disciplines

Mission

As mathematical models, software and workflows can be applied to a wide range of disciplines from natural and life sciences to the humanities, it is crucial to reflect the disciplines needs for FAIR research data management and standardized descriptions of these artifacts. Starting from case studies, TA4 aims at working together with interdisciplinary partners and other NFDI consortia to develop interdisciplinary workflows, standardize mathematical descriptions and create a platform for exchange. These activities, together with the standardization of data within the NFDI framework, is intended to emulate the FAIR principles and provides a dependable platform from which other disciplines could benefit.

Standardization of mathematical descriptions for us means the creation of a database for mathematical models. This development is in progress and is called MathModDB.

Moreover, MaRDMO will function as an interface, enabling researchers from diverse disciplines to document their interdisciplinary workflows and mathematical models through the Research Data Management Organiser (RDMO).

Use Cases / Workflows

The documentation of interdisciplinary workflows reflects Measure M4.1. of the MaRDI research program. It is a crucial part to understand the requirements of the applied sciences with respect to their mathematical grounding. Moreover, it serves as a predecessing step toward the development of a mathematical standardization. Please find a list of interdisciplinary use cases our work is based on here: Workflows

Also see a list in alphabetical order here

MathModDB - A database for mathematical models

As models are a crucial step in the model-simulation pipeline, and mathematical standardization is elementary in our mission statement, the development of a database for mathematical models is justified and reflects Measure M4.2. in the MaRDI research program. The database will be set up as an ontology / knowledge graph, called MathModDB.

MaRDMO - A Plugin for the Research Data Management Organiser

MaRDMO is a plugin designed to streamline the documentation of workflows (Measure M4.1). Primarily utilized for Model-Simulation-Optimization workflows in the numerical domain, MaRDMO also exhibits versatility in accommodating workflows from other domains such as algebra. Integrated within RDMO, it offers a structured questionnaire guiding researchers through the documentation process. By fetching additional information from established sources, MaRDMO ensures comprehensive documentation while minimizing duplication of effort. Its seamless integration with RDMO enhances usability, allowing for the semi-automatic generation of workflow documentation. Recently, the MathModDB ontology (Measure M4.2) was integrated into MaRDMO to enhance the documentation of mathematical models within the workflows, further improving its functionality.

Click here to get further information.

Materials, HowTos, Tutorials, ...

Team

Fraunhofer Institute for Industrial Mathematics, Kaiserslautern


University of Stuttgart


Weierstrass-Institute for Applied Analysis and Stochastics, Berlin


Zuse Institute Berlin

Publications

Publications of TA4 personnel related to MaRDI

2022

Benner P., Burger, M., Göddeke D., Görgen, C., Himpe, C., Hintermüller, M., Heiland, J., Koprucki T., Ohlberger, M., Rave S., Reidelbach M., Saak, J., Schöbel, A., Tabelow, K., and Weber, M., 2022. Die mathematische Forschungsdateninitiative in der NFDI: MaRDI. GAMM-Rundbrief, 1, pp.40-43.

Reidelbach, M., Weber, M. MaRDI - The mathematical Research Data Initiative. Aktionstag Forschungsdaten FU Berlin. https://doi.org/10.5281/zenodo.7397588

2023

Boege, T., Fritze, R., Görgen, C., Hanselman, J., Iglezakis, D., Kastner, L., Koprucki, T., Krause, T.H., Lehrenfeld, C., Polla, S. and Reidelbach, M., 2023. Data management planning in the German mathematical community. European Mathematical Society Magazine, (130), pp.40-47. https://doi.org/10.4171/mag/152

MaRDI Consortium, 2023. Research Data Management Planning in Mathematics. https://doi.org/10.5281/zenodo.10018246

Reidelbach, M., Ferrer. E and Weber M., 2023. MaRDMO Plugin - Document and Retrieve Workflows Using the MaRDI Portal. In Proceedings of the Conference on Research Data Infrastructure (Vol. 1). https://doi.org/10.52825/cordi.v1i.254

Schembera, B., Wübbeling, F., Kleikamp, H., Biedinger, C., Fiedler, J., Reidelbach, M., Shehu, A., Schmidt, B., Koprucki, T., Iglezakis, D. and Göddeke, D., 2023. Ontologies for Models and Algorithms in Applied Mathematics and Related Disciplines. arXiv preprint arXiv:2310.20443.

Schembera, B., Riethmüller, C. and Göddeke, D., Enabling FAIR Data in Computational Science, Engineering and Mathematics through Knowledge Graphs.

Schembera, B., Wübbeling, F., Koprucki, T., Biedinger, C., Reidelbach, M., Schmidt, B., Göddeke, D. and Fiedler, J., 2023, September. Building Ontologies and Knowledge Graphs for Mathematics and its Applications. In Proceedings of the Conference on Research Data Infrastructure (Vol. 1). https://doi.org/10.52825/cordi.v1i.255

2024

Diederichs, K., Krause, C., Lemaire, M., Reidelbach, M. and Windeck, J., 2024. A Vision for Data Management Plans in the NFDI. https://doi.org/10.5281/zenodo.10570654

Reidelbach, M., Schembera, B., Weber, M. (2024). Towards a FAIR Documentation of Workflows and Models in Applied Mathematics. In: Buzzard, K., Dickenstein, A., Eick, B., Leykin, A., Ren, Y. (eds) Mathematical Software – ICMS 2024. ICMS 2024. Lecture Notes in Computer Science, vol 14749. Springer, Cham. https://doi.org/10.1007/978-3-031-64529-7_27

Talks

Talks given by TA4 personnel related to MaRDI

2022

Reidelbach, M., 21.09.2022. Mathematical Research Data Initiative. Talk @ "Digital Humanities meet Mathematics" Workshop, Berlin.

2023

Reidelbach, M., 29.03.2023. MaRDMO - An RDMO plugin to populate and query the MaRDI Knowledge Graph. Talk @ 9th RDMO Community Meeting, Online.

Reidelbach, M., 17.04.2023. MaRDMO - An RDMO plugin to document and query MSO Workflows using the MaRDI Knowledge Graph. Talk @ Leibniz MMS Days, Potsdam. https://doi.org/10.5446/62069

Reidelbach, M., 26.05.2023. MaRDMO - An RDMO plugin to populate and query the MaRDI Knowledge Graph. Talk @ Meeting of 'Data Management Planning' working group of NFDI Section Common Infrastructures, Online.

Reidelbach, M., 29.06.2023. MaRDMO - Document and Retrieve Interdisciplinary Workflows Using the MaRDI Portal. Workshop @ NFDI-MATWREK Conference, Siegburg.

Reidelbach, M., 25.09.2023. MaRDMO Plugin - Document and Retrieve Interdisciplinary Workflows Using the MaRDI Portal. Talk @ MaRDI Mini-Symposium in DMV, Illmenau.

Weber, M., 26.09.2023. MaRDMO – An RDMO plugin to populate and query the MaRDI Knowledge Graph. Talk @ KLAIM, Kaiserslautern.

Reidelbach, M., 27.09.2023. MaRDMO Plugin - Document and Retrieve Interdisciplinary Workflows Using the MaRDI Portal. Talk @ NFDI4Ing Conference, Online. https://doi.org/10.5281/zenodo.8388577

Reidelbach, M., 10.10.2023. MaRDMO – Document and Query Interdisciplinary Workflows Using the MaRDI Portal. Talk @ "Maths meets Information Specialists" Workshop, Leipzig.

2024

Reidelbach, M., 12.03.2024. Mathematical Research Data Initiative - Vision and Services. Talk @ Math+ Conference "Interpretations, Explanations, and Knowledge Gain", Berlin.

Reidelbach, M., 24.07.2024. Towards a FAIR Documentation of Workflows and Models in Applied Mathematics. Talk @ ICMS 2024, Durham, England.

Workshops

Workshops that have been co-organized by TA4 personnel

  • Was könn(t)en DMPs eigentlich alles leisten? (14.06.2023, Online)
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