Subjects: Computer Science >> Integration Theory of Computer Science submitted time 2022-11-28 Cooperative journals: 《数据智能（英文）》
Abstract： In this paper we present the Reproducible Research Publication Workflow (RRPW) as an example of how generic canonical workflows can be applied to a specific context. The RRPW includes essential steps between submission and final publication of the manuscript and the research artefacts (i.e., data, code, etc.) that underlie the scholarly claims in the manuscript. A key aspect of the RRPW is the inclusion of artefact review and metadata creation as part of the publication workflow. The paper discusses a formalized technical structure around a set of canonical steps which helps codify and standardize the process for researchers, curators, and publishers. The proposed application of canonical workflows can help achieve the goals of improved transparency and reproducibility, increase FAIR compliance of all research artefacts at all steps, and facilitate better exchange of annotated and machine-readable metadata.
Subjects: Computer Science >> Integration Theory of Computer Science submitted time 2022-11-28 Cooperative journals: 《数据智能（英文）》
Peter, Wittenburg
Alex, Hardisty
Yann, Le Franc
Amirpasha, Mozaffari
Limor, Peer
Nikolay, A. Skvortsov
Zhiming, Zhao
Alessandro, Spinuso
Abstract： The FAIR principles have been accepted globally as guidelines for improving data-driven science and data management practices, yet the incentives for researchers to change their practices are presently weak. In addition, data-driven science has been slow to embrace workflow technology despite clear evidence of recurring practices. To overcome these challenges, the Canonical Workflow Frameworks for Research (CWFR) initiative suggests a large-scale introduction of self-documenting workflow scripts to automate recurring processes or fragments thereof. This standardised approach, with FAIR Digital Objects as anchors, will be a significant milestone in the transition to FAIR data without adding additional load onto the researchers who stand to benefit most from it. This paper describes the CWFR approach and the activities of the CWFR initiative over the course of the last year or so, highlights several projects that hold promise for the CWFR approaches, including Galaxy, Jupyter Notebook, and RO Crate, and concludes with an assessment of the state of the field and the challenges ahead.
Subjects: Computer Science >> Integration Theory of Computer Science submitted time 2022-11-28 Cooperative journals: 《数据智能（英文）》
Peter, Wittenburg
Alex, Hardisty
Amirpasha, Mozzafari
Limor, Peer
Nikolay, Skvortsov
Alessandro, Spinuso
Zhiming, Zhao
Abstract： This special issue is on Canonical Workflow Frameworks for Research (CWFR). A workflow refers to a sequence of activities, which may be more or less computer-based, used with regularity in the research process. CWFR aim to identify common patterns in such scientifically motivated workflows and to offer libraries of components based on FAIR Digital Objects as the integrative standard. Such CWFR components can be reusable independent of particular technologies, benefitting researchers in their daily work by making recurring activities more efficient, using automated workflow methods that would immediately create FAIR compliant data without adding burden.
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