The EOSC-Life Workflow Collaboratory for the Life Sciences




FAIR data, digital objects, Computational Workflows, Data Intensive Bio-Science, Fair Workflows, Fair Software


Workflows have become a major tool for the processing of Research Data, for example, data collection and data cleaning pipelines, data analytics, and data update feeds populating public archives. The EOSC-Life Research Infrastructure Cluster project brought together Europe’s Life Science Research Infrastructures to create an Open, Digital and Collaborative space for biological and medical research to develop a cloud-based Workflow Collaboratory. As adopting FAIR practices extends beyond data, the Workflow Collaboratory drives the implementation of FAIR computational workflows and tools. It fosters tool-focused collaborations and reuse via the sharing of data analysis workflows and offers an ecosystem of services for researchers and workflow specialists to find, use and reuse workflows. It’s web-friendly Digital Object Metadata Framework, based on RO-Crate and Bioschemas, supports the description and exchange of workflows across the services.


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T. Reiter, P.T. Brooks, L. Irber, S.E.K. Joslin, C.M. Reid, C. Scott, C.T. Brown, N.T. Pierce-Ward, “Streamlining data-intensive biology with workflow systems”, GigaSci-ence, vol.10, no.1, pp:1-19, January 2021,

C. Goble, S. Cohen-Boulakia, S. Soiland-Reyes, D. Garijo, Y. Gil, M.R. Crusoe, K. Peters, D. Schober, “FAIR Computational Workflows. Data Intelligence” vol.2, no.1, pp:108–121, 2020,

T. Kluyver, B. Ragan-Kelley, F. Pérez, B.E. Granger, M. Bussonnier, J. Frederic, K. Kelley, J.B. Hamrick, J. Grout, S. Corlay et al “Jupyter notebooks—a publishing for-mat for reproducible computational workflows” In F Loizides, B Scmidt (eds) Interna-tional conference on electronic publishing. IOS Press, ELPUB, Göttingen, 2016, pp:87–90

P. Di Tommaso, M. Chatzou, E. Floden, P.P. Barja, E. Palumbo, C. Notredame, “Nextflow enables reproducible computational workflows”. Nat Biotechnol vol.35, pp:316–319, 2017,

J. Köster, S. Rahmann, “Snakemake—a scalable bioinformatics workflow engine”, Bioinformatics, vol.28, no.19, pp:2520–2522, October 2012,

E Afgan, D. Baker, B Batut, et al. (2018) “The Galaxy platform for accessible, repro-ducible and collaborative biomedical analyses: 2018 update”, Nucleic Acids Research, vol.46, pp:W537–W544, 2018,

M.R. Crusoe, S. Abeln, A. Iosup, P. Amstutz, J. Chilton, N. Tijanić, H. Ménager, S. Soiland-Reyes, B. Gavrilović, C. Goble, “The CWL Community Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Lan-guage”, CACM, vol.65, no.6, pp:54-63 June 2022,

F. da Veiga Leprevost et al, BioContainers: an open-source and community-driven framework for software standardization, Bioinformatics, vol.33, no.16, pp: 2580–2582, August 2017,

J. Ison, et al. Tools and data services registry: a community effort to document bioin-formatics resources. Nucleic Acids Research. 2015, vol.44, no.D1, pp:D38–D47January 2016,

C. Goble, S. Soiland-Reyes, F. Bacall, S. Owen, L. Pireddu, S. Leo. EOSC-Life Im-plementation of a mechanism for publishing and sharing workflows across instances of the environment. 2023, Zenodo.

M. Barker, N.P. Chue Hong, D.S. Katz, A-L. Lamprecht, C. Martinez-Ortiz, F. Psomo-poulos, J. Harrow, L.J. Castro, M. Gruenpeter, P. Andrea Martinez, T. Honeyman. “In-troducing the FAIR Principles for research software”. Sci Data 9, vol.622, 2022,

A. Gray, L.J. Castro, N. Juty, C. Goble “ for Scientific Data” in A. Choudhary, G. Fox, T. Hey (eds) Artificial Intelligence for Science, pp:495-514, 2023,

J. Ison, M. Kalas, I. Jonassen, D. Bolser, M. Uludag, H. McWilliam, J. Malone, R. Lopez, S. Pettifer, P. Rice, “EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats”, Bioinformatics, vol.29, no.10, pp:1325-32, May 2013

S. Soiland-Reyes, P. Sefton, M. Crosas, L.J. Castro, F. Coppens, J.M. Fernández, D. Garijo, B. Grüning, M. La Rosa, S. Leo, E. Ó Carragáin, M. Portier, A. Trisovic, RO-Crate Community, P. Groth, C. Goble “Packaging Research Artefacts with RO-Crate”, Data Science, vol.5, no.2, pp: 97 – 138. 2022, 10.3233/DS-210053

S. Soiland-Reyes, P. Sefton, L.J. Castro, F. Coppens, D. Garijo, S. Leo, M. Portier, P. Groth, “Creating lightweight FAIR Digital Objects with RO-Crate”, Research Ideas and Outcomes vol.8, no.e93937, 2022,




How to Cite

Goble, C., Bacall, F., Soiland-Reyes, S., Owen, S., Eguinoa, I., Droesbeke, B., … Coppens, F. (2023). The EOSC-Life Workflow Collaboratory for the Life Sciences. Proceedings of the Conference on Research Data Infrastructure , 1.
Received 2023-04-25
Accepted 2023-06-29
Published 2023-09-07

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