Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory

Carole Goble; Stian Soiland-Reyes; Finn Bacall; Stuart Owen; Alan Williams; Ignacio Eguinoa; Bert Droesbeke; Simone Leo; Luca Pireddu; Laura Rodríguez-Navas; José Mª Fernández; Salvador Capella-Gutierrez; Hervé Ménager; Björn Grüning; Beatriz Serrano-Solano; Philip Ewels; Frederik Coppens

doi:10.5281/zenodo.4605654

Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory

Carole Goble, Stian Soiland-Reyes, Finn Bacall, Stuart Owen, Alan Williams, Ignacio Eguinoa, Bert Droesbeke, Simone Leo, Luca Pireddu, Laura Rodríguez-Navas, José Mª Fernández, Salvador Capella-Gutierrez, Hervé Ménager, Björn Grüning, Beatriz Serrano-Solano, Philip Ewels, Frederik Coppens

Information Management

Research output: Contribution to journal › Article

Abstract

EOSC-Life is developing a cloud-based workflow collaboratory to drive implementation of FAIR workflows across disciplines and RI boundaries, and foster tool- focused collaborations and reuse between communities via the sharing of data analysis workflows. The collaboratory aims to provide a framework for researchers and workflow specialists to use and reuse workflows

EOSC-Life has developed WorkflowHub as an inclusive workflow registry, agnostic to any Workflow Management System (WfMS). WorkflowHub aims to incorporate their workflows in partnership with the WfMS, to embed the registration of workflows in the community processes, e.g. based on pre-existing workflow repositories. The registry adopts common practices, e.g.use of GitHub repositories, and supports integration with the ecosystem of tool packages, assisted by registries (bio.tools, biocontainers), and services for testing and benchmarking workflows (OpenEBench, LifeMonitor).

Original language	English
Journal	Zenodo
DOIs	https://doi.org/10.5281/zenodo.4605654
Publication status	Published - 1 Mar 2021

Keywords

WorkflowHub
Computational Workflow
repository
FAIR Digital Object
FAIR

Access to Document

10.5281/zenodo.4605654Licence: CC BY

https://s11.no/2021/phd/workflow-collaboratory/Licence: CC BY

2 Finished

EOSC-Life: Providing an open collaborative space for digital biology in Europe
Goble, C. (PI), Bacall, F. (Technical team), Owen, S. (Researcher), Soiland-Reyes, S. (Researcher) & Williams, A. (Researcher)
1/03/19 → 31/08/23
Project: Research
BioExcel-2 Centre of Excellence for Computational Biomolecular Research
Goble, C. (PI), Soiland-Reyes, S. (Researcher), Long, R. (Researcher), Lowe, D. (Researcher), Woolland, O. (Researcher) & Capes, G. (Researcher)
1/01/19 → 30/06/22
Project: Research

2 Article
1 Conference contribution
1 Conference article
1 Preprint

WorkflowHub: a registry for computational workflows
Gustafsson, O. J. R., Wilkinson, S. R., Bacall, F., Pireddu, L., Soiland-Reyes, S., Leo, S., Owen, S., Juty, N., Fernández, J. M., Grüning, B., Brown, T., Ménager, H., Capella-Gutierrez, S., Coppens, F. & Goble, C., 9 Oct 2024, arXiv.
Research output: Preprint/Working paper › Preprint

Open Access
File
9 Downloads (Pure)
Enhancing RDM in Galaxy by integrating RO-Crate
De Geest, P., Coppens, F., Soiland-reyes, S., Eguinoa, I. & Leo, S., 12 Oct 2022, In: Research Ideas and Outcomes. 8, e95164.
Research output: Contribution to journal › Conference article › peer-review

Open Access
Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Language
Crusoe, M. R., Abeln, S., Iosup, A., Amstutz, P., Chilton, J., Tijanić, N., Ménager, H., Soiland-Reyes, S., Gavrilović, B., Goble, C. A. & The CWL Community (Collaborator), 20 May 2022, In: Communications of the ACM. 65, 6, p. 54–63 10 p.
Research output: Contribution to journal › Article › peer-review

Open Access
File
183 Downloads (Pure)

1 Membership of network

FAIR Digital Objects Forum (FDO) (External organisation)
Soiland-Reyes, S. (Member)
11 Dec 2019 → …
Activity: Membership › Membership of network › Research

Cite this

Goble, C., Soiland-Reyes, S., Bacall, F., Owen, S., Williams, A., Eguinoa, I., Droesbeke, B., Leo, S., Pireddu, L., Rodríguez-Navas, L., Fernández, J. M., Capella-Gutierrez, S., Ménager, H., Grüning, B., Serrano-Solano, B., Ewels, P., & Coppens, F. (2021). Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory. Zenodo. https://doi.org/10.5281/zenodo.4605654

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abstract = "EOSC-Life is developing a cloud-based workflow collaboratory to drive implementation of FAIR workflows across disciplines and RI boundaries, and foster tool- focused collaborations and reuse between communities via the sharing of data analysis workflows. The collaboratory aims to provide a framework for researchers and workflow specialists to use and reuse workflowsEOSC-Life has developed WorkflowHub as an inclusive workflow registry, agnostic to any Workflow Management System (WfMS). WorkflowHub aims to incorporate their workflows in partnership with the WfMS, to embed the registration of workflows in the community processes, e.g. based on pre-existing workflow repositories. The registry adopts common practices, e.g.use of GitHub repositories, and supports integration with the ecosystem of tool packages, assisted by registries (bio.tools, biocontainers), and services for testing and benchmarking workflows (OpenEBench, LifeMonitor).",

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AU - Ménager, Hervé

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AU - Serrano-Solano, Beatriz

AU - Ewels, Philip

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Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory

Abstract

Keywords

Access to Document

Fingerprint

Projects

EOSC-Life: Providing an open collaborative space for digital biology in Europe

BioExcel-2 Centre of Excellence for Computational Biomolecular Research

Research output

WorkflowHub: a registry for computational workflows

Enhancing RDM in Galaxy by integrating RO-Crate

Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Language

Activities

FAIR Digital Objects Forum (FDO) (External organisation)

Cite this