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Bioschemas at BioHackathon-Europe 2021

Dates: 08 November 2021 - 12 November 2021

Venue: Hybrid: Virtual / Campus La Mola, Camí dels Plans de Can Bonvilar, S/N, 08227 Terrassa, Barcelona, Spain


Meeting page:

Members of the Bioschemas community will be present at the BioHackathon-Europe 2021. We will be happy to help with the development of markup for your resource and in refining existing, or drafting new, profiles.

Our primary hackathon topic will be on Facilitating life science metadata curation through Bioschemas Validators.

Abstract: Bioschemas is a community effort to specify the minimal, recommended, optional Life Science metadata. Conformance to these profiles is vital to support harvesting by initiatives such as OpenAIRE. However, biologists and bioinformaticians may find annotating their resources to be too technically complex and time-consuming without the availability of user-friendly tools. Multiple initiatives are emerging to provide support tools. FAIR-checker is a web-application, supported by Knowledge Graphs, aimed at providing developers with technical hints to better implement FAIR principles, and provide minimal Bioschemas markup for better findability. Within the Bioschemas Community, there have been efforts to develop a reusable scraper (BMUSE) to reliably retrieve embedded markup in websites, as well as several validation frameworks to test the conformance of retrieved markup against a stated Bioschemas Profile. These include the TeSS Validator, CTSA/NIH Data Discovery Engine, the ELIXIR JSON Schema validator, and Bioschemas Validata. These frameworks have tried a variety of underlying technologies, including JSON-Schema, ShEx, and SHACL. The goal of this is project is to leverage Bioschemas community profiles and gather community efforts on metadata validation to provide: scraping and validation tools, basic statistics on live deploys metadata quality (per profile), tools to help the crowd-sourced Bioschemas markup curation.

Progress Reporting Slides

The embedded slides below contain the project reports from day 1 and day 3 of the BioHackathon.