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BioHackathon Europe projects 2023

This repository is meant for the participants of the BioHackathon hosted near Barcelona in November 2023 to share ideas, create issues, manage projects, publish materials, create code, etc.

Projects

  • Project 1: A “batteries-included” open reference resource for human genomic copy number variants (CNV)
  • Project 2: Assessing quality and privacy metrics of synthetic health data for benchmarking: the variant callers use case.
  • Project 3: Automating the building of a virtual, distributed pollinator reference collection.
  • Project 4: Benchmarks for Bioinformatics Workflow Bake Offs. BioHackRxiv Report (2023-12-18)
  • Project 5: BioHackrXiv and publications
  • Project 6: BioModelsML: Building a FAIR and reproducible collection of machine learning models in life science and medicine for easy reuse
  • Project 7: Bioschemas resource index for chem and plants. BioHackRxiv Report (2024-01-30)
  • Project 8: Building towards a machine-actionable Software Management Plan
  • Project 9: Cell type-specific and druggable pathway models and maps
  • Project 10: FAIR Workflow Execution with WfExS and Workflow Run Crate
  • Project 11: Creating lesson plans to advance (life sciences) data steward & researcher FAIR skills
  • Project 12: Creating the ELIXIR Data Stewardship/Management (DS/DM) Handbook - a guide for DS/DM to manage their life sciences RDM efforts
  • Project 13: Discovering Bioinformatics Software in Software Heritage
  • Project 14: Enabling continuous RDM using Annotated Research Contexts with RO-Crate profiles for ISA. BioHackRxiv Report (2024-01-02)
  • Project 15: Enabling FAIR Digital Objects with RO-Crates, Signposting and Bioschemas. BioHackRxiv Report (2024-01-08)
  • Project 16: Enhancing the image analysis community in Galaxy
  • Project 17: Extending interoperability of experimental data using modular queries across biomedical resources. BioHackRxiv Report (2023-12-01)
  • Project 18: FAIRification of mass spectral library creation
  • Project 19: Galaxy ENA Upload as an Interactive Tool
  • Project 20: Genome annotation workflows for the tree of life
  • Project 21: Health data text mining
  • Project 22: Improved linking from sequence data to specimens and samples repositories
  • Project 23: Improving Bioschemas creation and community adoption through process improvements and tool development, and advancing compliance to FAIR standards
  • Project 24: Improving functionality and usability of OpenEBench for data-driven research in Life Sciences through Community-led efforts
  • Project 25: Increasing the findability, visibility, and impact of Galaxy tools for specialised scientific Communities
  • Project 26: Literature Biocuration Practices and Guidelines
  • Project 27: Multi-Repository Data Submission using ISA-JSON
  • Project 28: Providing a seamless and interoperable environment for executing life science workflows
  • Project 29: Secure data-out API - enabling encrypted htsget transactions
  • Project 30: Standards and ontologies for single cell experiments
  • Project 31: Standards for a multimodal data wastewater surveillance process
  • Project 32: Synergising ELIXIR Resources for Training in Systems Biology
  • Project 33: The BioHackathon Cloud
  • Project 34: Training SPLASH
  • Project 35: Write once, run everywhere: exploring the use of Rust and WebAssembly to implement the Nanopublication signing protocol