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bioRxiv · 10.64898/2026.05.14.724833

Elab2ARC: A Browser-Based Workspace for Converting Free-Text Protocols into rich FAIR digital objects

Zander, S.·Zhou, X.-R.·Kranz, A.·Dumschott, K.·Rocca-Serra, P.·Weil, H. L.·Tschoepke, M.·Muehlhaus, T.·Von Suchodoletz, D.·Usadel, B.
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Abstract

Electronic laboratory notebooks (ELNs) are widely used in the life sciences, but their notebook format limits machine-readability and FAIR compliance. Consequently, researchers often spend significant manual effort restructuring ELN records into publication-ready outputs. We present elab2ARC, a browser-based workspace that automates the conversion of open-source eLabFTW records into Annotated Research Contexts (ARCs)-- version-controlled, ISA-compliant research objects. Using the eLabFTW API, elab2ARC retrieves administrative metadata, protocols, and attachments, reorganising them into ISA-compliant tables and linked datasets. All processing occurs client-side, ensuring user data control before submission to the PLANTdataHUB repository. An optional LLM-assisted workflow extracts structured metadata from free-text protocols, providing editable drafts while preserving human oversight. Designed for use at project completion, elab2ARC reuses existing ELN documentation without disrupting daily laboratory practice. It offers a practical route to FAIR-aligned sharing, publication, and long-term archiving of life-science experimental records. Availability and implementationelab2ARC is freely accessible at https://nfdi4plants.org/elab2arc/. The source code is available at https://github.com/nfdi4plants/elab2arc under a GPL-3.0 license. Supplementary informationSupplementary data are available online.

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Zander, S., Zhou, X.-R., Kranz, A., Dumschott, K., Rocca-Serra, P., Weil, H. L., Tschoepke, M., Muehlhaus, T., Von Suchodoletz, D., Usadel, B.. 2026-05-18. Elab2ARC: A Browser-Based Workspace for Converting Free-Text Protocols into rich FAIR digital objects. https://doi.org/10.64898/2026.05.14.724833

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