Representing bioinformatics Nextflow workflows in RO-Crate : challenges and opportunities

George Marchment (1) , Marie Schmit (2) , Clémence Sebe (1) , Frédéric Lemoine (2) , Hervé Ménager (2) , Sarah Cohen-Boulakia (1)

1 LISN - Laboratoire Interdisciplinaire des Sciences du Numérique
2 Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB

This research was conducted as part of the ShareFAIR project dedicated to assisting bioinformaticians in creating, comparing, and exchanging robust analysis workflows for multi- scale datasets related to neuro-vascular pathologies. ShareFAIR partners use workflows from diverse types of systems. One important challenge lies in uniformly and simply representing workflows such that partners can understand, share and reuse them. The aim of this research is to evaluate how the standards currently available, especially RO-Crate, allow to represent workflows.

Mots clés: Workflows; RO-Crate; Nextflow

Domaines: Bio-informatique [q-bio.QM]

George Marchment, Marie Schmit, Clémence Sebe, Frédéric Lemoine, Hervé Ménager, et al.. Representing bioinformatics Nextflow workflows in RO-Crate : challenges and opportunities. Semantic Web Applications and Tools for Health Care and Life Sciences, Feb 2024, Leiden, Netherlands. Zenodo, 2024, ⟨10.5281/zenodo.10822156⟩. ⟨hal-04540040⟩