Skip to main content
U.S. Department of Energy
Office of Scientific and Technical Information

Applying the FAIR Principles to computational workflows

Journal Article · · Scientific Data (Online)
 [1];  [2];  [3];  [4];  [5];  [6];  [7];  [8];  [2];  [9];  [8];  [10];  [11];  [12];  [13];  [14];  [15];  [2];  [16];  [17] more »;  [18];  [19];  [2] « less
  1. Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF)
  2. Univ. of Manchester (United Kingdom)
  3. Paris Dauphine University (France)
  4. Zuse Institute Berlin (ZIB) (Germany)
  5. Barcelona Supercomputing Center (Spain)
  6. German Cancer Research Center (DKFZ), Heidelberg (Germany)
  7. Universidad Politécnica de Madrid (Spain)
  8. Univ. of Melbourne, VIC (Australia)
  9. University of Melbourne Centre for Cancer Research (UMCCR), Parkville, VIC (Australia)
  10. University of Duisburg-Essen (Germany)
  11. Deutsches Klimarechenzentrum GmbH, Hamburg (Germany)
  12. Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)
  13. Silverdraft Supercomputing, Boise, ID (United States)
  14. Univ. of Manchester (United Kingdom); Univ. of Amsterdam (Netherlands)
  15. Earlham Institute, Norwich (United Kingdom)
  16. George Mason Univ., Fairfax, VA (United States)
  17. Riga Stradins University (Latvia)
  18. Univ. of New South Wales, Kensington, NSW (Australia)
  19. Ontario Institute for Cancer Research, Toronto, ON (Canada)
Recent trends within computational and data sciences show an increasing recognition and adoption of computational workflows as tools for productivity and reproducibility that also democratize access to platforms and processing know-how. As digital objects to be shared, discovered, and reused, computational workflows benefit from the FAIR principles, which stand for Findable, Accessible, Interoperable, and Reusable. The Workflows Community Initiative’s FAIR Workflows Working Group (WCI-FW), a global and open community of researchers and developers working with computational workflows across disciplines and domains, has systematically addressed the application of both FAIR data and software principles to computational workflows. We present recommendations with commentary that reflects our discussions and justifies our choices and adaptations. These are offered to workflow users and authors, workflow management system developers, and providers of workflow services as guidelines for adoption and fodder for discussion. The FAIR recommendations for workflows that we propose in this paper will maximize their value as research assets and facilitate their adoption by the wider community.
Research Organization:
Sandia National Laboratories (SNL-NM), Albuquerque, NM (United States); Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF)
Sponsoring Organization:
USDOE Office of Science (SC), Advanced Scientific Computing Research (ASCR); USDOE National Nuclear Security Administration (NNSA)
Grant/Contract Number:
NA0003525; AC05-00OR22725
OSTI ID:
2530828
Alternate ID(s):
OSTI ID: 2538236
Report Number(s):
SAND--2025-02692J
Journal Information:
Scientific Data (Online), Journal Name: Scientific Data (Online) Journal Issue: 1 Vol. 12; ISSN 2052-4463
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
English

References (39)

Maximizing data value for biopharma through FAIR and quality implementation: FAIR plus Q journal May 2022
Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities journal October 2017
Validity constraints for data analysis workflows journal August 2024
Nextflow enables reproducible computational workflows journal April 2017
Introducing the FAIR Principles for research software journal October 2022
The O3 guidelines: open data, open code, and open infrastructure for sustainable curated scientific resources journal May 2024
The FAIR Guiding Principles for scientific data management and stewardship journal March 2016
EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats journal March 2013
A multi-omics data analysis workflow packaged as a FAIR Digital Object journal January 2024
Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv journal November 2019
The Dockstore: enhancing a community platform for sharing reproducible and accessible computational protocols journal May 2021
MGnify: the microbiome sequence data analysis resource in 2023 journal December 2022
The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update journal May 2024
Enabling discovery data science through cross-facility workflows conference December 2021
Reusability First: Toward FAIR Workflows conference September 2021
Middleware Building Blocks for Workflow Systems journal July 2019
Building the I (Interoperability) of FAIR for Performance Reproducibility of Large-Scale Composable Workflows in RECUP conference October 2023
Why workflows break — Understanding and combating decay in Taverna workflows conference October 2012
Workflow Reuse in Practice: A Study of Neuroimaging Pipeline Users conference October 2014
F*** workflows: when parts of FAIR are missing conference October 2022
Parsl: Pervasive Parallel Programming in Python
  • Babuji, Yadu; Foster, Ian; Wilde, Michael
  • Proceedings of the 28th International Symposium on High-Performance Parallel and Distributed Computing - HPDC '19 https://doi.org/10.1145/3307681.3325400
conference January 2019
Methods included journal May 2022
FAIR Computational Workflows journal January 2020
The Need of Industry to Go FAIR journal January 2020
Making Canonical Workflow Building Blocks Interoperable across Workflow Languages journal January 2022
Investigating reproducibility and tracking provenance – A genomic workflow case study journal July 2017
Sustainable data analysis with Snakemake journal April 2021
Perspectives on automated composition of workflows in the life sciences journal September 2021
Ten simple rules for making a software tool workflow-ready journal March 2022
Ten quick tips for building FAIR workflows journal September 2023
Recording provenance of workflow runs with RO-Crate journal September 2024
Packaging research artefacts with RO-Crate journal July 2022
Implementation of FAIR Practices in Computational Metabolomics Workflows—A Case Study journal February 2024
OpenSlide: A vendor-neutral software foundation for digital pathology journal January 2013
Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory text January 2021
Workflows Community Summit 2022: A Roadmap Revolution report January 2023
Run of digital pathology tissue/tumor prediction workflow dataset January 2023
RO-Crate Metadata Specification 1.1.3 text January 2023
Full-stack genomics pipelining with GATK4 + WDL + Cromwell other January 2017

Similar Records

FAIR for AI: An interdisciplinary and international community building perspective
Journal Article · Wed Jul 26 00:00:00 EDT 2023 · Scientific Data (Online) · OSTI ID:3000813

Reusability First: Toward FAIR Workflows
Conference · Wed Sep 01 00:00:00 EDT 2021 · OSTI ID:1827005

Related Subjects