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Aurela Shehu
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updated doi in references-en.html and updated createDocumentation.sh (mainly replaced python3 with python and some stylistic changes)
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‎docs/createDocumentation.sh‎

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#
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# All paths can be set by variables.
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#
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# call example bash createDocumentation.sh ../MaRDIModelOntology_full.owl widoco-1.4.25-jar-with-dependencies_JDK-17.jar
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# call example ./createDocumentation.sh ../MathModDB_full.owl "C:/Users/shehu/Documents/MaRDI/Widoco/widoco-1.4.25-jar-with-dependencies_JDK-17.jar"
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####################################################
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# Path to the OWL-File of the ontology
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# Path to the Widocu JAR
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widocuJarPath="$2"
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echo -n "Preprocessing Ontology... "
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echo "Preprocessing Ontology... "
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# First preprocessing step: Remove all informations objects in the data
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# properties that have "internal:anonymous-constant". This can be done since
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# they are duplicate entries and Protege and/or OWL can't handle custom
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# datatype, as our self-defined "LaTeX"
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python3 ./scripts/remove_anonConstants.py $owlOntPath ontology_full_anonRemoved.owl
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python ./scripts/remove_anonConstants.py $owlOntPath ontology_full_anonRemoved.owl
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# Second preprocessing step: Swap rdfs:comment with dcterms:description
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# to have a short description in the heading and the long description in
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# the statement for better readbility
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python3 ./scripts/swap_rdfsTerms.py ontology_full_anonRemoved.owl ontology_full_anonRemoved_swappedTerms.owl
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python ./scripts/swap_rdfsTerms.py ontology_full_anonRemoved.owl ontology_full_anonRemoved_swappedTerms.owl
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echo -n "DONE"
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echo "DONE"
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echo -n "Creating WIDOCU... "
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echo "Creating WIDOCO... "
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# Create Widocu
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java -jar $widocuJarPath -ontFile ontology_full_anonRemoved_swappedTerms.owl -outFolder $widocuOutputPath -confFile $widocuConfPath -getOntologyMetadata -rewriteAll -htaccess -webVowl -includeAnnotationProperties -uniteSections >logfile.txt 2>&1
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echo "DONE"
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echo -n "Postprocessing WIDOCU... "
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# Postprocess the WIDOCU output
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echo "Postprocessing WIDOCO... "
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# Postprocess the WIDOCO output
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bash scripts/postProcessWidocu.sh
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./scripts/postProcessWidocu.sh
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echo -n "DONE"
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echo "DONE"
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echo -n "WIDOCU has been created in index.html"
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echo "WIDOCO has been created in index.html"

‎docs/customSections/references-en.html‎

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@@ -5,9 +5,8 @@ <h2 id="ref" class="list">References <span class="backlink"> back to <a href="#t
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<li>Danabalan, Renita, Michael Hintermüller, Thomas Koprucki, and Karsten Tabelow. "MaRDI: Building Research Data Infrastructures for Mathematics and the Mathematical Sciences." In Proceedings of the Conference on Research Data Infrastructure, vol. 1. 2023.<a href="https://doi.org/10.52825/cordi.v1i.397">https://doi.org/10.52825/cordi.v1i.397</a> </li>
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<li>Schembera, Björn, Frank Wübbeling, Hendrik Kleikamp, Burkhard Schmidt, Aurela Shehu, Marco Reidelbach, Christine Biedinger et al. "Towards a Knowledge Graph for Models and Algorithms in Applied Mathematics." arXiv preprint arXiv:2408.10003 2024. <a href="https://doi.org/10.48550/arXiv.2408.10003">https://doi.org/10.48550/arXiv.2408.10003</a></li>
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<li>Schembera, Björn, Frank Wübbeling, Hendrik Kleikamp, Burkhard Schmidt, Aurela Shehu, Marco Reidelbach, Christine Biedinger et al. "Towards a Knowledge Graph for Models and Algorithms in Applied Mathematics." In: Sfakakis, M., Garoufallou, E., Damigos, M., Salaba, A., Papatheodorou, C. (eds) Metadata and Semantic Research. MTSR 2024. Communications in Computer and Information Science, vol 2331. Springer, Cham. <a href="https://doi.org/10.1007/978-3-031-81974-2_8">https://doi.org/10.1007/978-3-031-81974-2_8</a></li>
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<li>Schembera, Björn, Frank Wübbeling, Hendrik Kleikamp, Christine Biedinger, Jochen Fiedler, Marco Reidelbach, Aurela Shehu et al. "Ontologies for models and algorithms in applied mathematics and related disciplines." In Research Conference on Metadata and Semantics Research, pp. 161-168. Cham: Springer Nature Switzerland, 2023. <a href="https://doi.org/10.1007/978-3-031-65990-4_14">https://doi.org/10.1007/978-3-031-65990-4_14</a></li>
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<li>Schembera, Björn, Frank Wübbeling, Thomas Koprucki, Christine Biedinger, Marco Reidelbach, Burkhard Schmidt, Dominik Göddeke, and Jochen Fiedler. "Building Ontologies and Knowledge Graphs for Mathematics and its Applications." In Proceedings of the Conference on Research Data Infrastructure, vol. 1. 2023. <a href="https://doi.org/10.52825/cordi.v1i.255">https://doi.org/10.52825/cordi.v1i.255</a></li>

‎docs/index-en.html‎

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<!-- SCHEMA.ORG METADATA -->
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<script type="application/ld+json">{"@context":"https://schema.org","@type":"TechArticle","url":"https://mardi4nfdi.de/mathmoddb","image":"http://vowl.visualdataweb.org/webvowl/#iri=https://mardi4nfdi.de/mathmoddb","name":"MathModDB Ontology and Knowledge Graph for Mathematical Models", "headline":"MathModDB is a database of mathematical models developed by the Mathematical Research Data Initiative (MaRDI). MathModDB defines a data model with classes (Mathematical Model, Mathematical Formulation, Research Field, Research Problem, Quantity [Kind], Computational Task, Publication), object properties/relations, data properties and annotation properties as an ontology. This ontology is populated with individuals/data from various fields of applied mathematics, making it a knowledge graph.", "dateReleased":"Thu Feb 27 10:27:50 CET 2025", "version":"1.0.0", "license":"https://creativecommons.org/licenses/by/4.0/", "author":[{"@type":"Person","name":"Aurela Shehu (https://orcid.org/0000-0002-1994-0612), Weierstrass Institute Berlin for Applied Analysis and Stochastics (https://ror.org/00h1x4t21, https://isni.org/isni/000000010066936X)"},{"@type":"Person","name":"Björn Schembera (https://orcid.org/0000-0003-2860-6621), Universität Stuttgart (https://ror.org/04vnq7t77, https://isni.org/isni/0000000419369713)"},{"@type":"Person","name":"Burkhard Schmidt (https://orcid.org/0000-0002-9658-499X), Weierstrass Institute Berlin for Applied Analysis and Stochastics (https://ror.org/00h1x4t21, https://isni.org/isni/000000010066936X)"},{"@type":"Person","name":"Christine Biedinger (https://orcid.org/0009-0002-5082-8386), Fraunhofer Institute for Industrial Mathematics ITWM (https://ror.org/019hjw009)"},{"@type":"Person","name":"Jochen Fiedler (https://orcid.org/0000-0002-9176-780X), Fraunhofer Institute for Industrial Mathematics ITWM (https://ror.org/019hjw009)"},{"@type":"Person","name":"Marco Reidelbach (https://orcid.org/0000-0002-1919-1834), Zuse Institute Berlin (https://ror.org/02eva5865, https://isni.org/isni/000000011010926X)"},{"@type":"Person","name":"Thomas Koprucki (https://orcid.org/0000-0001-6235-9412), Weierstrass Institute Berlin for Applied Analysis and Stochastics (https://ror.org/00h1x4t21, https://isni.org/isni/000000010066936X)"}]}</script>
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<script type="application/ld+json">{"@context":"https://schema.org","@type":"TechArticle","url":"https://mardi4nfdi.de/mathmoddb","image":"http://vowl.visualdataweb.org/webvowl/#iri=https://mardi4nfdi.de/mathmoddb","name":"MathModDB Ontology and Knowledge Graph for Mathematical Models", "headline":"MathModDB is a database of mathematical models developed by the Mathematical Research Data Initiative (MaRDI). MathModDB defines a data model with classes (Mathematical Model, Mathematical Formulation, Research Field, Research Problem, Quantity [Kind], Computational Task, Publication), object properties/relations, data properties and annotation properties as an ontology. This ontology is populated with individuals/data from various fields of applied mathematics, making it a knowledge graph.", "dateReleased":"Thu Feb 27 14:43:52 CET 2025", "version":"1.0.0", "license":"https://creativecommons.org/licenses/by/4.0/", "author":[{"@type":"Person","name":"Aurela Shehu (https://orcid.org/0000-0002-1994-0612), Weierstrass Institute Berlin for Applied Analysis and Stochastics (https://ror.org/00h1x4t21, https://isni.org/isni/000000010066936X)"},{"@type":"Person","name":"Björn Schembera (https://orcid.org/0000-0003-2860-6621), Universität Stuttgart (https://ror.org/04vnq7t77, https://isni.org/isni/0000000419369713)"},{"@type":"Person","name":"Burkhard Schmidt (https://orcid.org/0000-0002-9658-499X), Weierstrass Institute Berlin for Applied Analysis and Stochastics (https://ror.org/00h1x4t21, https://isni.org/isni/000000010066936X)"},{"@type":"Person","name":"Christine Biedinger (https://orcid.org/0009-0002-5082-8386), Fraunhofer Institute for Industrial Mathematics ITWM (https://ror.org/019hjw009)"},{"@type":"Person","name":"Jochen Fiedler (https://orcid.org/0000-0002-9176-780X), Fraunhofer Institute for Industrial Mathematics ITWM (https://ror.org/019hjw009)"},{"@type":"Person","name":"Marco Reidelbach (https://orcid.org/0000-0002-1919-1834), Zuse Institute Berlin (https://ror.org/02eva5865, https://isni.org/isni/000000011010926X)"},{"@type":"Person","name":"Thomas Koprucki (https://orcid.org/0000-0001-6235-9412), Weierstrass Institute Berlin for Applied Analysis and Stochastics (https://ror.org/00h1x4t21, https://isni.org/isni/000000010066936X)"}]}</script>
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<script src="resources/jquery.js"></script>
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<script src="resources/marked.min.js"></script>
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<a href="#ArtificialNeuralNetwork"
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title="https://mardi4nfdi.de/mathmoddb#ArtificialNeuralNetwork">Artificial Neural Network</a>
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</li>
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<li>
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<a href="#Artificial_Neural_Network"
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title="https://mardi4nfdi.de/mathmoddb#Artificial_Neural_Network">
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<span>Artificial Neural Network</span>
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</a>
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</li>
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<li>
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<a href="#Astronomy" title="https://mardi4nfdi.de/mathmoddb#Astronomy">Astronomy</a>
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</li>
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<li><a href="#Area" title="https://mardi4nfdi.de/mathmoddb#Area">Area</a></li>
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<li><a href="#AreaOfImage" title="https://mardi4nfdi.de/mathmoddb#AreaOfImage">Area of Image</a></li>
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<li><a href="#ArtificialNeuralNetwork" title="https://mardi4nfdi.de/mathmoddb#ArtificialNeuralNetwork">Artificial Neural Network</a></li>
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<li><a href="#Artificial_Neural_Network" title="https://mardi4nfdi.de/mathmoddb#Artificial_Neural_Network"> <span>Artificial Neural Network</span> </a></li>
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<li><a href="#Astronomy" title="https://mardi4nfdi.de/mathmoddb#Astronomy">Astronomy</a></li>
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<li><a href="#AsymptomaticInfectionRate" title="https://mardi4nfdi.de/mathmoddb#AsymptomaticInfectionRate">Asymptomatic Infection Rate</a></li>
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<li><a href="#AsymptomaticRecoveryRate" title="https://mardi4nfdi.de/mathmoddb#AsymptomaticRecoveryRate">Asymptomatic Recovery Rate</a></li>
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<dt>
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has facts
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</dt>
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<dd>
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<a href="#contains" title="https://mardi4nfdi.de/mathmoddb#contains">contains</a> <sup class="type-op" title="object property">op</sup> <a href="#LossFunctionModel" title="https://mardi4nfdi.de/mathmoddb#LossFunctionModel">Loss Function Model</a> <sup class="type-ni" title="named individual">ni</sup>
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</dd>
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<dd>
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<a href="#specializedBy" title="https://mardi4nfdi.de/mathmoddb#specializedBy">specialized by</a> <sup class="type-op" title="object property">op</sup> <a href="#FeedforwardNeuralNetwork" title="https://mardi4nfdi.de/mathmoddb#FeedforwardNeuralNetwork">Feedforward Neural Network</a> <sup class="type-ni" title="named individual">ni</sup>
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</dd>
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</dd>
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</dl>
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</div>
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<div class="entity" id="Artificial_Neural_Network">
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<h3>Artificial Neural Network<sup class="type-ni" title="named individual">ni</sup> <span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#namedindividuals">Named Individual ToC</a> </span></h3>
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<p><strong>IRI:</strong> https://mardi4nfdi.de/mathmoddb#Artificial_Neural_Network</p>
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<dl class="description">
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<dt>
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has facts
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</dt>
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<dd>
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<a href="#contains" title="https://mardi4nfdi.de/mathmoddb#contains">contains</a> <sup class="type-op" title="object property">op</sup> <a href="#LossFunctionModel" title="https://mardi4nfdi.de/mathmoddb#LossFunctionModel">Loss Function Model</a> <sup class="type-ni" title="named individual">ni</sup>
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</dd>
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</dl>
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</div>
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<div class="entity" id="Astronomy">
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<h3>Astronomy<sup class="type-ni" title="named individual">ni</sup> <span class="backlink"> back to <a href="#toc">ToC</a> or <a href="#namedindividuals">Named Individual ToC</a> </span></h3>
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<p><strong>IRI:</strong> https://mardi4nfdi.de/mathmoddb#Astronomy</p>
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<dd>
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<a href="#containedIn" title="https://mardi4nfdi.de/mathmoddb#containedIn">contained in</a> <sup class="type-op" title="object property">op</sup> <a href="#Artificial_Neural_Network" title="https://mardi4nfdi.de/mathmoddb#Artificial_Neural_Network">Artificial Neural Network</a> <sup class="type-ni" title="named individual">ni</sup>
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<a href="#containedIn" title="https://mardi4nfdi.de/mathmoddb#containedIn">contained in</a> <sup class="type-op" title="object property">op</sup> <a href="#ArtificialNeuralNetwork" title="https://mardi4nfdi.de/mathmoddb#ArtificialNeuralNetwork">Artificial Neural Network</a> <sup class="type-ni" title="named individual">ni</sup>
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</dd>
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<dd>
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<a href="#wikidataID" title="https://mardi4nfdi.de/mathmoddb#wikidataID">wikidata I D</a> <sup class="type-ap" title="annotation property">ap</sup> <a href="https://wikidata.org/wiki/Q1036748" target="_blank" title="https://wikidata.org/wiki/Q1036748">Q1036748</a> <sup class="type-ep" title="external property">ep</sup>
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<li>Danabalan, Renita, Michael Hintermüller, Thomas Koprucki, and Karsten Tabelow. "MaRDI: Building Research Data Infrastructures for Mathematics and the Mathematical Sciences." In Proceedings of the Conference on Research Data Infrastructure, vol. 1. 2023.<a href="https://doi.org/10.52825/cordi.v1i.397">https://doi.org/10.52825/cordi.v1i.397</a> </li>
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<li>Schembera, Björn, Frank Wübbeling, Hendrik Kleikamp, Burkhard Schmidt, Aurela Shehu, Marco Reidelbach, Christine Biedinger et al. "Towards a Knowledge Graph for Models and Algorithms in Applied Mathematics." arXiv preprint arXiv:2408.10003 2024. <a href="https://doi.org/10.48550/arXiv.2408.10003">https://doi.org/10.48550/arXiv.2408.10003</a></li>
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<li>Schembera, Björn, Frank Wübbeling, Hendrik Kleikamp, Burkhard Schmidt, Aurela Shehu, Marco Reidelbach, Christine Biedinger et al. "Towards a Knowledge Graph for Models and Algorithms in Applied Mathematics." In: Sfakakis, M., Garoufallou, E., Damigos, M., Salaba, A., Papatheodorou, C. (eds) Metadata and Semantic Research. MTSR 2024. Communications in Computer and Information Science, vol 2331. Springer, Cham. <a href="https://doi.org/10.1007/978-3-031-81974-2_8">https://doi.org/10.1007/978-3-031-81974-2_8</a></li>
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<li>Schembera, Björn, Frank Wübbeling, Hendrik Kleikamp, Christine Biedinger, Jochen Fiedler, Marco Reidelbach, Aurela Shehu et al. "Ontologies for models and algorithms in applied mathematics and related disciplines." In Research Conference on Metadata and Semantics Research, pp. 161-168. Cham: Springer Nature Switzerland, 2023. <a href="https://doi.org/10.1007/978-3-031-65990-4_14">https://doi.org/10.1007/978-3-031-65990-4_14</a></li>
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<li>Schembera, Björn, Frank Wübbeling, Thomas Koprucki, Christine Biedinger, Marco Reidelbach, Burkhard Schmidt, Dominik Göddeke, and Jochen Fiedler. "Building Ontologies and Knowledge Graphs for Mathematics and its Applications." In Proceedings of the Conference on Research Data Infrastructure, vol. 1. 2023. <a href="https://doi.org/10.52825/cordi.v1i.255">https://doi.org/10.52825/cordi.v1i.255</a></li>

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