Packaging research artefacts with RO-Crate
Authors:
- Stian Soiland-ReyesSSStian Soiland-Reyes
- Peter SeftonPSPeter Sefton
- Mercè CrosasMCMercè Crosas
- Leyla Jael CastroLCLeyla Jael Castro
- Frederik CoppensFCFrederik Coppens
- José M. FernándezJosé M. Fernández
- Daniel GarijoDGDaniel Garijo
- Björn GrüningBGBjörn Grüning
- Marco La RosaMRMarco La Rosa
- Simone LeoSLSimone Leo
- Eoghan Ó CarragáinECEoghan Ó Carragáin
- Marc PortierMPMarc Portier
Top Cited Papers
Open Access
- 4 January 2022
- journal article
- research article
- Published by SAGE Publications in Data Science
- Vol. 5 (2) , 97-138
Abstract
An increasing number of researchers support reproducibility by including pointers to and descriptions of datasets, software and methods in their publications. However, scientific articles may be ambiguous, incomplete and difficult to process by automated systems. In this paper we introduce RO-Crate, an open, community-driven, and lightweight approach to packaging research artefacts along with their metadata in a machine readable manner. RO-Crate is based on Schema.org annotations in JSON-LD, aiming to establish best practices to formally describe metadata in an accessible and practical way for their use in a wide variety of situations. An RO-Crate is a structured archive of all the items that contributed to a research outcome, including their identifiers, provenance, relations and annotations. As a general purpose packaging approach for data and their metadata, RO-Crate is used across multiple areas, including bioinformatics, digital humanities and regulatory sciences. By applying “just enough” Linked Data standards, RO-Crate simplifies the process of making research outputs FAIR while also enhancing research reproducibility. An RO-Crate for this article 1 1 https://w3id.org/ro/doi/10.5281/zenodo.5146227 is archived at https://doi.org/10.5281/zenodo.5146227 .Keywords
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This publication has 72 references indexed in Scilit:
- Ten Simple Rules for Reproducible Computational ResearchPLOS Computational Biology, 2013
- Snakemake—a scalable bioinformatics workflow engineBioinformatics, 2012
- ELIXIR: a distributed infrastructure for European biological dataTrends in Biotechnology, 2012
- Linked Data: Evolving the Web into a Global Data SpaceSynthesis Lectures on the Semantic Web: Theory and Technology, 2011
- The Dataverse Network®: An Open-Source Application for Sharing, Discovering and Preserving DataD-Lib Magazine, 2011
- Community-driven computational biology with Debian LinuxBMC Bioinformatics, 2010
- myExperiment: a repository and social network for the sharing of bioinformatics workflowsNucleic Acids Research, 2010
- VAMP: a service for validating MPEG-7 descriptions w.r.t. to formal profile definitionsMultimedia Tools and Applications, 2009
- Provenance trails in the Wings/Pegasus systemConcurrency and Computation: Practice and Experience, 2007
- The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB dataNucleic Acids Research, 2006