PhD

Beside working at The University of Manchester I am a PhD Candidate in the INDElab at the Informatics Institute of the University of Amsterdam.

My supervisor is Paul Groth and my topic is Using Research Objects to improve reproducibility. I started in July 2019.

As I am doing a thesis by publication, these pages gather the articles submitted/accepted/published so far that will become part of my PhD thesis. Note that some of these articles have been slightly reformatted to fit publication on the Web.

Chapter 1: Introduction TODO: Introduction to PhD
Chapter 2: Updating Linked Data practices for FAIR Digital Object principles Talk abstract presented at FAIR Digital Objects conference (FDO2022)
Chapter 3: Evaluating FAIR Digital Object as a distributed object system Work in progress
Chapter 4: Creating lightweight FAIR Digital Objects with RO-Crate Poster abstract presented at FAIR Digital Objects conference (FDO2022)
Chapter 5: Packaging research artefacts with RO-Crate Journal article published in Data Science
Chapter 6: Making Canonical Workflow Building Blocks interoperable across workflow languages Journal article published in Data Intelligence
Chapter 7: Incrementally building FAIR Digital Objects with Specimen Data Refinery workflows Poster abstract presented at FAIR Digital Objects conference (FDO2022)
Chapter 8: The Specimen Data Refinery: A canonical workflow framework and FAIR Digital Object approach to speeding up digital mobilisation of natural history collections Journal article published in Data Intelligence
Chapter 9: Summary TODO: Discussions and conclusions of PhD
Chapter 10: Contributions TODO: Contributions of PhD
Chapter 11: Acknowledgements TODO: Acknowledgements of PhD
Supplement 1: Ten Simple Rules for making a software tool workflow-ready Journal article published in PLOS Computational Biology
Supplement 2: Enhancing RDM in Galaxy by integrating RO-Crate Poster abstract presented at FAIR Digital Objects conference (FDO2022)
Supplement 3: Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory Zenodo white paper
Supplement 4: Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Language Journal article published in Communications of the ACM
Supplement 5: Semantic micro-contributions with decentralized nanopublication services Journal article published in PeerJ Computer Science