User-friendly Composition of FAIR Workflows in a Notebook Environment
This addresses the problem of reusability and FAIR compliance in scientific workflows for researchers using notebooks, though it is incremental as it builds on existing notebook and semantic technology approaches.
The paper tackles the challenge of making scientific computational workflows in Jupyter notebooks compliant with FAIR principles by introducing a toolset that adds semantic technologies and nanopublications, with a user study showing it is feasible and user-friendly, achieving a System Usability Scale score of 78.75.
There has been a large focus in recent years on making assets in scientific research findable, accessible, interoperable and reusable, collectively known as the FAIR principles. A particular area of focus lies in applying these principles to scientific computational workflows. Jupyter notebooks are a very popular medium by which to program and communicate computational scientific analyses. However, they present unique challenges when it comes to reuse of only particular steps of an analysis without disrupting the usual flow and benefits of the notebook approach, making it difficult to fully comply with the FAIR principles. Here we present an approach and toolset for adding the power of semantic technologies to Python-encoded scientific workflows in a simple, automated and minimally intrusive manner. The semantic descriptions are published as a series of nanopublications that can be searched and used in other notebooks by means of a Jupyter Lab plugin. We describe the implementation of the proposed approach and toolset, and provide the results of a user study with 15 participants, designed around image processing workflows, to evaluate the usability of the system and its perceived effect on FAIRness. Our results show that our approach is feasible and perceived as user-friendly. Our system received an overall score of 78.75 on the System Usability Scale, which is above the average score reported in the literature.