modelRxiv: A platform for the dissemination and interactive display of models Article Swipe
Keith D. Harris
,
Guy Hadari
,
Gili Greenbaum
·
YOU?
·
· 2022
· Open Access
·
· DOI: https://doi.org/10.1101/2022.02.16.480599
YOU?
·
· 2022
· Open Access
·
· DOI: https://doi.org/10.1101/2022.02.16.480599
Modeling the dynamics of biological processes is ubiquitous across the ecological and evolutionary disciplines. However, the increasing complexity of these models poses a significant challenge to the dissemination of model-derived results. With the existing requirements of scientific publishing, most often only a small subset of model results are generated, presented in static figures or tables, and made available to the scientific community. Further exploration of the parameter space of a model, investigation of possible variations of a model, and validation of the results in relation to model assumptions commonly rely on local deployment of code supplied by the authors. This can pose a technical challenge due to the diversity of frameworks and environments in which models are developed, and preclude model validation and exploration by readers and reviewers. To address this issue, we developed a platform that serves as an interactive repository of biological models, called modelRxiv . The platform provides a unified interface for the analysis of models that does not require any technical understanding of the model implementation. To facilitate adding models to modelRxiv , we utilize OpenAI large-language models (LLMs) to make code written in different programming languages compatible with modelRxiv , making the platform language-agnostic. modelRxiv is designed to serve as an interactive extension of published models, allowing users to regenerate model results under user-defined parameterizations of the model. By making published models accessible, this platform promises to significantly improve the accessibility, reproducibility, and validation of ecological and evolutionary models.
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Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/2022.02.16.480599
- https://www.biorxiv.org/content/biorxiv/early/2022/02/19/2022.02.16.480599.full.pdf
- OA Status
- green
- Cited By
- 3
- References
- 12
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4213164311
All OpenAlex metadata
Raw OpenAlex JSON
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https://openalex.org/W4213164311Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1101/2022.02.16.480599Digital Object Identifier
- Title
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modelRxiv: A platform for the dissemination and interactive display of modelsWork title
- Type
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preprintOpenAlex work type
- Language
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enPrimary language
- Publication year
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2022Year of publication
- Publication date
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2022-02-19Full publication date if available
- Authors
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Keith D. Harris, Guy Hadari, Gili GreenbaumList of authors in order
- Landing page
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https://doi.org/10.1101/2022.02.16.480599Publisher landing page
- PDF URL
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https://www.biorxiv.org/content/biorxiv/early/2022/02/19/2022.02.16.480599.full.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
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greenOpen access status per OpenAlex
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https://www.biorxiv.org/content/biorxiv/early/2022/02/19/2022.02.16.480599.full.pdfDirect OA link when available
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Computation, Computer graphics (images), Computer science, Distribution (mathematics), Human–computer interaction, Mathematics, Algorithm, Mathematical analysisTop concepts (fields/topics) attached by OpenAlex
- Cited by
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3Total citation count in OpenAlex
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2025: 1, 2024: 1, 2023: 1Per-year citation counts (last 5 years)
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12Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.frameworks | 111 |
| abstract_inverted_index.generated, | 49 |
| abstract_inverted_index.increasing | 17 |
| abstract_inverted_index.regenerate | 215 |
| abstract_inverted_index.repository | 142 |
| abstract_inverted_index.reviewers. | 128 |
| abstract_inverted_index.scientific | 37, 61 |
| abstract_inverted_index.ubiquitous | 8 |
| abstract_inverted_index.validation | 80, 122, 239 |
| abstract_inverted_index.variations | 75 |
| abstract_inverted_index.accessible, | 228 |
| abstract_inverted_index.assumptions | 88 |
| abstract_inverted_index.exploration | 64, 124 |
| abstract_inverted_index.interactive | 141, 207 |
| abstract_inverted_index.programming | 190 |
| abstract_inverted_index.publishing, | 38 |
| abstract_inverted_index.significant | 24 |
| abstract_inverted_index.disciplines. | 14 |
| abstract_inverted_index.environments | 113 |
| abstract_inverted_index.evolutionary | 13, 243 |
| abstract_inverted_index.requirements | 35 |
| abstract_inverted_index.user-defined | 219 |
| abstract_inverted_index.dissemination | 28 |
| abstract_inverted_index.investigation | 72 |
| abstract_inverted_index.model-derived | 30 |
| abstract_inverted_index.significantly | 233 |
| abstract_inverted_index.understanding | 166 |
| abstract_inverted_index.accessibility, | 236 |
| abstract_inverted_index.large-language | 181 |
| abstract_inverted_index.implementation. | 170 |
| abstract_inverted_index.reproducibility, | 237 |
| abstract_inverted_index.parameterizations | 220 |
| abstract_inverted_index.language-agnostic. | 199 |
| cited_by_percentile_year.max | 95 |
| cited_by_percentile_year.min | 89 |
| corresponding_author_ids | https://openalex.org/A5026464707 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 3 |
| corresponding_institution_ids | https://openalex.org/I197251160 |
| citation_normalized_percentile.value | 0.66473878 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |