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INTOXICOM Workshop Report: Advancing FAIR toxicology research output across Europe: ELIXIR & FAIRsharing studies

https://index.biohackrxiv.org//2026/05/01/64dfv.html

Published: May 1, 2026 00:00

As part of the INTOXICOM Implementation Study for the ELIXIR Toxicology Community a series of workshops is organized. The first INTOXICOM workshop was held in May 2024. Here, we here report on the 2nd workshop, titled “Enhancing Research Output: FAIR…

Snakemake Hackathon 2026

https://index.biohackrxiv.org//2026/04/27/h6zqj.html

Published: April 27, 2026 00:00

Reproducible, scalable, and portable data-analysis pipelines are now a fundamental prerequisite for modern data analysis research across all research domains. Snakemake has emerged as one of the most widely adopted systems for declarative pipeline…

Improving package annotation in metabolomics and proteomics via robust, ontology-driven LLM integration

https://index.biohackrxiv.org//2026/04/14/x5v6b.html

Published: April 14, 2026 00:00

Identifying the most appropriate bioinformatics tool for a task remains challenging across multiple domains. Annotating tools with EDAM ontology terms (e.g. topics, operations, input / output data and formats) can help, but manual annotation is…

GA4GH VRS for the Semantic Web

https://index.biohackrxiv.org//2026/04/13/qy4td.html

Published: April 13, 2026 00:00

There is currently no standardized representation of genomic variants in RDF. To address this issue, during the DBCLS BioHackathon 2024 we modelled an RDF Schema for the GA4GH VRS to enable interoperability of this standard within the bioinformatics…

Minimal information standardization of phenomic experimental data in animals

https://index.biohackrxiv.org//2026/04/10/ncrkm.html

Published: April 10, 2026 00:00

The current landscape of animal phenomics is characterised by a substantial lack of standardisation, hindering data reuse, reproducibility, and interoperability across studies, all of which are particularly important in light of the 3Rs principles for…

Evolving FAIR Image Analysis in Galaxy for Cross-domain and AI-ready Applications

https://index.biohackrxiv.org//2026/03/31/tsxby.html

Published: March 31, 2026 00:00

The increasing adoption of image-based technologies across life sciences, environmental research, and related domains has increased the demand for interoperable, reproducible, and FAIR-compliant image analysis infrastructures. At ELIXIR BioHackathon Europe…

Towards Federated Learning Across Biobanks: Prototype Software from the 2026 Carnegie Mellon University–NVIDIA Hackathon

https://index.biohackrxiv.org//2026/03/20/5psfj.html

Published: March 20, 2026 00:00

The Carnegie Mellon University-NVIDIA Federated Learning Hackathon for Biomedical Applications (January 7-9, 2026) convened researchers from academia, government, and industry to implement federated frameworks for disease subtyping, genetic association…

Tools to develop constraint-based models in R: adapting existing toolboxes

https://index.biohackrxiv.org//2026/03/13/ey4c5.html

Published: March 13, 2026 00:00

As part of the BioHackathon Europe 2025, we here report on the progress of the hacking team preparing tools to develop constraint-based models in R for the Systems Biology community. This preliminary development relies on the adaptation of existing…

Bidirectional bridge: GitHub ⇄ bio.tools

https://index.biohackrxiv.org//2026/02/24/8ktd6.html

Published: February 24, 2026 00:00

Research software metadata can be found across many code repositories and software registries. Here, we describe the tooling for a bidirectional bridge between the software development platform GitHub and the ELIXIR bio.tools registry of life sciences…

BH25DE report: On the path to machine-actionable training materials

https://index.biohackrxiv.org//2026/01/26/un6cd.html

Published: January 26, 2026 00:00

The fragmentation of training materials across research infrastructures often results in unsustainable resource duplication and significant barriers to upskilling. This work aims to enable developers to build systems that effectively discover relevant…

METRICS - Monitoring of Key Performance Indicators for ELIXIR Services

https://index.biohackrxiv.org//2026/01/22/2jgk4.html

Published: January 22, 2026 00:00

Key Performance Indicators (KPIs) are increasingly requested by a diverse range of stakeholders across the research ecosystem. Funders want to measure the impact of projects and related services they fund, or research organisations want to track the…