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Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform
Obtaining a standardized benchmark of computational methods is a major issue in data-science communities. Dedicated frameworks enabling fair benchmarking in a unified environment are yet to be developed. Here, we introduce Codabench, a meta-benchmark platform that is open sourced and community drive...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9278500/ https://www.ncbi.nlm.nih.gov/pubmed/35845844 http://dx.doi.org/10.1016/j.patter.2022.100543 |
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author | Xu, Zhen Escalera, Sergio Pavão, Adrien Richard, Magali Tu, Wei-Wei Yao, Quanming Zhao, Huan Guyon, Isabelle |
author_facet | Xu, Zhen Escalera, Sergio Pavão, Adrien Richard, Magali Tu, Wei-Wei Yao, Quanming Zhao, Huan Guyon, Isabelle |
author_sort | Xu, Zhen |
collection | PubMed |
description | Obtaining a standardized benchmark of computational methods is a major issue in data-science communities. Dedicated frameworks enabling fair benchmarking in a unified environment are yet to be developed. Here, we introduce Codabench, a meta-benchmark platform that is open sourced and community driven for benchmarking algorithms or software agents versus datasets or tasks. A public instance of Codabench is open to everyone free of charge and allows benchmark organizers to fairly compare submissions under the same setting (software, hardware, data, algorithms), with custom protocols and data formats. Codabench has unique features facilitating easy organization of flexible and reproducible benchmarks, such as the possibility of reusing templates of benchmarks and supplying compute resources on demand. Codabench has been used internally and externally on various applications, receiving more than 130 users and 2,500 submissions. As illustrative use cases, we introduce four diverse benchmarks covering graph machine learning, cancer heterogeneity, clinical diagnosis, and reinforcement learning. |
format | Online Article Text |
id | pubmed-9278500 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-92785002022-07-14 Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform Xu, Zhen Escalera, Sergio Pavão, Adrien Richard, Magali Tu, Wei-Wei Yao, Quanming Zhao, Huan Guyon, Isabelle Patterns (N Y) Descriptor Obtaining a standardized benchmark of computational methods is a major issue in data-science communities. Dedicated frameworks enabling fair benchmarking in a unified environment are yet to be developed. Here, we introduce Codabench, a meta-benchmark platform that is open sourced and community driven for benchmarking algorithms or software agents versus datasets or tasks. A public instance of Codabench is open to everyone free of charge and allows benchmark organizers to fairly compare submissions under the same setting (software, hardware, data, algorithms), with custom protocols and data formats. Codabench has unique features facilitating easy organization of flexible and reproducible benchmarks, such as the possibility of reusing templates of benchmarks and supplying compute resources on demand. Codabench has been used internally and externally on various applications, receiving more than 130 users and 2,500 submissions. As illustrative use cases, we introduce four diverse benchmarks covering graph machine learning, cancer heterogeneity, clinical diagnosis, and reinforcement learning. Elsevier 2022-06-24 /pmc/articles/PMC9278500/ /pubmed/35845844 http://dx.doi.org/10.1016/j.patter.2022.100543 Text en © 2022 The Authors https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Descriptor Xu, Zhen Escalera, Sergio Pavão, Adrien Richard, Magali Tu, Wei-Wei Yao, Quanming Zhao, Huan Guyon, Isabelle Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform |
title | Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform |
title_full | Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform |
title_fullStr | Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform |
title_full_unstemmed | Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform |
title_short | Codabench: Flexible, easy-to-use, and reproducible meta-benchmark platform |
title_sort | codabench: flexible, easy-to-use, and reproducible meta-benchmark platform |
topic | Descriptor |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9278500/ https://www.ncbi.nlm.nih.gov/pubmed/35845844 http://dx.doi.org/10.1016/j.patter.2022.100543 |
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