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BioHackrXiv

@biohackrxiv.fediscience.org.ap.brid.gy

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BioHackrXiv is a preprint server powered by OSF. It was created with the aim of reporting on the work done during BioHackathons, CodeFests, Sprints or similar […] 🌉 bridged from ⁂ fediscience.org/@biohackrxiv, follow @ap.brid.gy to interact

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 29/09/2026

first 2027 #biohackathon listed is #SnakemakeHackathon2027 index.biohackrxiv.org/tag/Snakemake…

index.biohackrxiv.org

Snakemake Hackathon 2027

Preprints for BioHackathons

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 26/09/2026

"DBCLS BioHackathon 2026 report: RDF publication of Marchantia polymorpha gene annotations, and agent-assisted preparation of DDBJ submissions" doi.org/10.37044/osf.io/xev4p_v1 #BH26JP #biohackathon #rdf "First, gene annotations of the liverwort […] [Original post on fediscience.org]

Figure 2: The bisbibenzyl route under salt stress. (a) Pathway schematic with enzyme steps coloured by the strongest induction among the expressed paralogs of that step. (b) log2 fold change of individual genes over a 100 mM NaCl time course, grouped by step.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 22/09/2026

"BioHackrXiv: Creating a federated publishing platform" doi.org/10.37044/osf.io/jh3m7_v1 "Overall goals are to have improved metadata and allow independence from OSF - though we can operate in parallel. Ideally BioHackrXiv would be a template for a federated solution for scientific […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 20/09/2026

"DBCLS BioHackathon 2026 report: Extending TogoMCP beyond RDF Portal while making its schema guides check their own answers" doi.org/10.37044/osf.io/t25ng_v1 #biohackathon #mcp #rdf #BH26JP #qlever "In the first six days of the event we published eleven releases (v2.12.2 to v2.20.0) […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 20/09/2026

"DBCLS BioHackathon 2026 report: Open, Reproducible Extraction of Data-Entity References from the Biomedical Literature – with Entry-Level Resolution via Identifiers.org / TogoID" doi.org/10.37044/osf.io/p87z6_v1 #biohackathon #identifier #BH26JP […] [Original post on fediscience.org]

Figure 3:Data Reuse Dashboard: database usage drill-down

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 20/09/2026

"Logica, an intelligent platform for semantic interoperability" doi.org/10.37044/osf.io/92bc5_v2 #biohackathon #semantics #hl7fhir #BH26JP "Logica is an interoperability platform that separates clinical meaning from physical data representation and separates language-model […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 19/09/2026

"DBCLS BioHackathon 2026 report: QPX: Pathway analysis environment for non-model organisms" doi.org/10.37044/osf.io/7egfm_v1 #biohackathon #pathway #bioinformatics #BH26JP #rice #arabidopsis "We report progress on Quest for Pathways with eXpression […] [Original post on fediscience.org]

Part of Figure 1: Arabidopsis-to-rice pathway liftover: whole pathway and N-module detail.

The selection shows the "PathLift" arrow between the original Arabidopsis pathway and the new, pathlifted Oryza sativa pathway. They highlighted a complex with a purple line, which is detailed in the bottom part of the original figure.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 18/09/2026

"DBCLS BioHackathon 2026 report: Variant representation in RDF for precision medicine" doi.org/10.37044/osf.io/su8kx_v1 #biohackathon #BH26JP #rdf #precisionMedicine "For the life science semantic web community, the provision of genomic variants ready for tools and applications is […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 18/09/2026

"Building InterMine databases from RDF Portal" doi.org/10.37044/osf.io/dqm3j_v1 #biohackathon #rdf #intermine #BH26JP "The public HumanMine has not had a data release since February 2022. RDF Portal, operated by the Database Division for Life […] [Original post on fediscience.org]

Figure 1:How a mine gets its data. (a) Today each HumanMine source has its own loader, written and maintained as code by the mine’s developers. (b) With RDF Portal and rdfc2im, the work for each dataset moves upstream: RDF Portal holds each dataset’s RDF and an rdf-config model written in rdf-config’s common form, made once and reused by every consumer. rdfc2im is one tool for all sources, and what remains for each source is a curated mapping, kept as data with the evidence for every row. Tags show scope (per source, per dataset, shared, reused), effort (manual, automatic) and form (code, template, data).

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 18/09/2026

"OSIRIS-MCP: Towards secure conversational access to research information in OSIRIS" doi.org/10.37044/osf.io/36g4c_v3 #biohackathon #osiris #mcp #BH26JP "We developed a prototype Model Context Protocol (MCP) connector for OSIRIS, an open-source […] [Original post on fediscience.org]

Figure 1:Architecture and trust boundaries of OSIRIS MCP. The language-model client communicatesonly with the read-only connector. OSIRIS retains responsibility for permissions, query construction,and access to the authoritative database.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 04/09/2026

Upcoming biohackathons: - DBCLS BioHackathon, Matsuyama, Japan, 2026: index.biohackrxiv.org/tag/BH26JP - BioHackathon Germany 2026, Göttingen, Germany, 2026: index.biohackrxiv.org/tag/BHG26 - BioHackathon Europe 2026, Barcelona, Spain, 2026 […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 04/09/2026

"AI-Assisted Variant Review Across Asia: Country-Level Expert Panels, Regional Collaboration, and Global Knowledge Sharing" doi.org/10.37044/osf.io/e5g6s_v1 #biohackathon #ai #MHA26 #rareDisease 'We argue that the most useful near-term role of […] [Original post on fediscience.org]

Figure 1. Proposed common platform connecting variant prioritization and evidence organization, structured expert review, and reviewed-knowledge sharing across Asia. In stage 1, integrated evidence sources may include phenotype information, allele frequencies, inheritance, gene-disease context, previous assertions, computational predictions, literature, and functional evidence, yielding a candidate shortlist and a traceable evidence package for review. In stage 2, multidisciplinary reviewers assess evidence in the context of the case, and may accept, reject, modify, or defer individual evidence items while preserving rationale, uncertainty, and disagreement. In stage 3, reviewed records can be reused for country-level operation, regional exchange, and contribution to global knowledge resources. AI and automation support information collection and organization across the workflow, including phenotype structuring, prioritization support, literature retrieval, evidence preparation, retrieval of previous reviews, and re-evaluation support. Final evidence assessment and interpretation remain under expert control.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 29/08/2026

"Enhancing e!DAL-PGP: A Modern Data Submission Platform for Plant Science Research Data" doi.org/10.37044/osf.io/9mj78_v1 #biohackathon #BH25DE #fairData #plants "The @deNBI Service e!DAL-PGP (Arend et al., 2016, p. Arend2020) serves as a critical […] [Original post on fediscience.org]

"Figure 3:Screenshot of the 3rd step of the data submission tool for selecting subject." The subject annotations uses various ontologies for the subject terms.

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 21/08/2026

"BioHackSWAT4HCLS25 report: Towards an interactive mapping experience for data owners" doi.org/10.37044/osf.io/mhvbs_v1 #biohackathon #SWAT4HCLS25 "At the Barcelona SWAT4HCLS 2025 Hackathon, a hacking group familiarized with and worked on improvements for RDFCraft. A tool for a data […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 21/08/2026

"INTOXICOM Workshop Report: Making toxicology tools more accessible and interoperable" doi.org/10.37044/osf.io/u3fnh_v1 #biohackathon #toxicology "Here, we here report on the 3rd workshop, titled “Making toxicology tools more accessible and interoperable” which was held from 26 to 27 […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 15/08/2026

"Variant annotation in RDF for clinical trials matching" doi.org/10.37044/osf.io/2hbqf_v1 #biohackathon #BH25JP #rdf #clinicalTrial "Precision oncology depends on semantic, interoperable representations of genomic variants (GV) - particularly structural variants (SVs) - to match […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 10/08/2026

"4th BioHackathon Germany report: Exploring Gamification Strategies to Enhance Bioinformatics Training" doi.org/10.37044/osf.io/dfwm9_v1 #biohackathon #BH25DE #gamification #training "While gamification can enhance engagement, implementing it […] [Original post on fediscience.org]

Pastel-colored infographic with a circle in the middle with the text "Gamifying Life Sciences Education: 10 Simple Rules", and around that a rectangle with 10 sections radiating our from the central circle, like a pie slice, but then from a rectangular cake. Each section has one of the 10 rules. But for that I refer to the article.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 10/08/2026

"Variant representation in RDF" doi.org/10.37044/osf.io/jazsb_v1 "we detected an emerging number of novel RDF models to represent variant information in genomic datasets potentially hindering data reuse. We tackled the question how semantic […] [Original post on fediscience.org]

Figure 1:Illustration of the SemBeacon RDF model mapping to GA4GH VRS RDF model.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 29/07/2026

"Schema-Driven Generation of Synthetic HL7 FHIR RDF Data from Shape Expressions (ShEx)" doi.org/10.37044/osf.io/3gak2_v1 #biohackathon #GOBLINHack26 #hl7fhir #shex "We describe how synthetic HL7 FHIR data in RDF was produced directly from Shape Expressions (ShEx), using the […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 27/07/2026

"Measure before you rewrite: ablation-driven redesign of LLM-facing RDF schema documentation in TogoMCP" doi.org/10.37044/osf.io/6v5ra_v1 #biohackathon #BH25JP #llm #mcp "MIE files are per-database YAML documents that TogoMCP supplies to a large […] [Original post on fediscience.org]

Figure 2: The v2.3 format’s eleven author-function sections mapped onto v3’s five need-based parts.shape_expressions and sample_rdf_entries do not survive as sections at all: a verified example subsumes both.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 10/07/2026

"Maintaining and refining the Tidyomics ecosystem: enhancing core packages and interoperability for EuroBioc2026" doi.org/10.37044/osf.io/cd9s6_v1 "First, we introduce tidyAnnData, a new package that expands interoperability between the tidyverse and […] [Original post on fediscience.org]

Figure 1: Schematic representation of the Tidyomics hackathon aims. 1. We introduced tidyAnnData to provide tidy operators for AnnData objects; 2. We fixed major bugs in information accessibility for Tidyomics core packages; 3. We updated and extended Tidyomics packages such as DFplyr and tidybulk; 4. We provide a comprehensive and concise vignette for the tidySingleCellExperiment package. This plot was created by Google Nano Banana 2.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 27/06/2026

BioHackrXiv authors can use Citation Typing Ontology (CiTO) citation intent annotations to express why they are citing the articles they cite. And many have! See doi.org/10.37044/OSF.IO/6RJVC and doi.org/10.5281/ZENODO.10072013 With 2026 […] [Original post on fediscience.org]

network of nodes and edges, with each node being a BioHackrXiv preprint, and the edges citations with CiTO intent annotations. The nodes have the first author surname and publication year, and the edges have the label of the CiTO citation intent. The graph has a few isolated networks, and 30 nodes in totel. The largest network has 17 articles and their 21 citations between these preprints.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 19/06/2026

"BiocExecute: Make package functions or workflows executable from the command line" doi.org/10.37044/osf.io/ywsmq_v1 "R2G2 integrates R with Galaxy, and Rapp (r-lib,2024) lets an R script run as if it were a command-line program. What is missing is a path from a Bioconductor package to […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 17/06/2026

"Rendering SSSOM ontology mappings as RDF named graphs and RDF 1.2 triple terms" doi.org/10.37044/osf.io/auhzg_v1 "At the GOBLIN hackathon we explored rendering it as RDF with the individual mapping as first-class object, via two complementary serializations: named graphs (TriG […]

fediscience.org

Original post on fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 16/06/2026

"Eurobioc2026 BiocContainer Report" doi.org/10.37044/osf.io/acxky_v1 "Containers enhance reproducibility and provide an easy and convenient way to share the setups used to run an analysis. As part of the EuroBioc 2026 Hackathon, this working group got together with the aim of offering […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 15/06/2026

"Bioconductor Spatial Data and Image Analysis Hackathon" doi.org/10.37044/osf.io/9ej32_v1 "We report the outcomes of the Bioconductor Spatial Data and Image Analysis Hackathon, held in Venice, Italy in April 2026. Twenty-seven researchers and […] [Original post on fediscience.org]

One of the figures from the preprint. It shows a 2d image of tissue, colored with a red stain, showing the red and white image that we see. At the top there is the text "Overlay: Terra Image and Segmentation".

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 07/06/2026

"2nd SpatialData Hackathon: Frameworks, Formats and Interoperability" doi.org/10.37044/osf.io/s6bph_v1 "The event gathered experts to advance spatial omics through four hackathon tracks: (i) R interoperability, (ii) accessibility and performance of […] [Original post on fediscience.org]

Figure 1: Comparison of Zarr, bioimaging and single-cell/spatial omics packages across scverse and Bioconductor ecosystems that interface with SpatialData objects on disk (“Database-icon” by Zahra Ibrahem is licensed under CC BY-SA 4.0. To view a copy of this license, visit https://creativecommons.org/licenses/by-sa/4.0/?ref=openverse.)

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 22/05/2026

"INTOXICOM Workshop Report: Systems Biology Models for Toxicology" doi.org/10.37044/osf.io/zf2qj_v1 "The workshop took place under the INTOXICOM Implementation Study workshop series (Integrating the toxicology community into ELIXIR 2024) and aimed to […] [Original post on fediscience.org]

Schematic with many boxes in various UML types. At the top we see a purple box with various stakeholders (JRC, ELIXIR, OECD, EIRENE, NWO, etc), and a blue box below this with various activities (AOP Wiki, Omics AOP, Methods AOP, AOP-DB, AOPXplorer, etc), supported by a layer reflection data warehouses (without much details). On the right side we see three headers (Macro level: landscape, Meso level: regimes, and Micro level (niches).

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 05/05/2026

"INTOXICOM Workshop Report: Advancing FAIRtoxicology research output across Europe: ELIXIR & FAIRsharing studies" doi.org/10.37044/osf.io/64dfv_v1 "As part of the INTOXICOM Implementation Study for the ELIXIR Toxicology Communitya series of workshops is organized. The first INTOXICOM […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 27/04/2026

"Snakemake Hackathon 2026" doi.org/10.37044/osf.io/h6zqj_v1 "Nonetheless, the platform’s continued evolution faces several open challenges: improving core performance on heterogeneous high-performance-computing (HPC) resources, extending the plugin architecture for domain-specific […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 14/04/2026

"Improving package annotation in metabolomics andproteomics via robust, ontology-driven LLM integration" doi.org/10.37044/osf.io/x5v6b_v1 "At BioHackathon Europe 2025, our team explored how Large Language Models (LLMs) can assist this process through […] [Original post on fediscience.org]

Figure 1: Mid-week reporting poster used during BioHackathon Europe 2025 to communicate early design decisions, illustrate EDAM branches, and motivate the use of the Model Context Protocol to mitigate LLM hallucinations during ontology-driven tool annotation.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 13/04/2026

"GA4GH VRS for the Semantic Web" doi.org/10.37044/osf.io/qy4td_v1 "We implemented an RDF Schema in ShEx, using OWL ontologies in the OBO Foundry such asthe NCI Thesaurus (NCIT), the Semanticscience Integrated Ontology (SIO), and the GenomeVariation Ontology (GVO). We based our modelling […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 10/04/2026

"Minimal information standardization of phenomic experimental data in animals" doi.org/10.37044/osf.io/ncrkm_v1 "The current landscape of animal phenomics is characterized by a substantial lack of stan-dardization, hindering data reuse, reproducibility, and interoperability across […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 31/03/2026

"Evolving FAIR Image Analysis in Galaxy for Cross-domain and AI-ready Applications" doi.org/10.37044/osf.io/tsxby_v1 "he project addressed three major challenges:1. Improving semantic annotation for image analysis resources.2. Introducing content-based reproducibility validation […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 21/03/2026

good luck to the participants of the SWAT4HCLS Biohackathon 2026 in the coming week! index.biohackrxiv.org/tag/SWAT4HCLS… Use the hashtag to post your progress and have it show up on the BioHackRxiv #fediwall: guide.biohackrxiv.org/fediwall #SWAT4HCLS26

index.biohackrxiv.org

SWAT4HCLS Biohackathon 2026

Preprints for BioHackathons

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 21/03/2026

"Towards Federated Learning Across Biobanks: Prototype Software from the 2026 Carnegie Mellon University–NVIDIA Hackathon" doi.org/10.37044/osf.io/5psfj_v1 "The Carnegie Mellon University-NVIDIA Federated Learning Hackathon for Biomedical […] [Original post on fediscience.org]

Figure 2.10-1: Distribution of species and proteins across different taxa (Human, Virus, Prokaryote, Eukaryote) in the ProteinGym benchmark.

It shows each of the four in separate colorful boxplots. Not easy to explain, and plz read the article for the details.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 14/03/2026

"Tools to develop constraint-based models in R: adapting existing toolboxes" doi.org/10.37044/osf.io/ey4c5_v1 "In this project, we proposed the (re)development of an R based framework for developing and simulating constraint-based models. We proposed to expand the Sybil library for […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 12/03/2026

good luck to the hackers at #SnakemakeHackathon2026 !

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 25/02/2026

"Bidirectional bridge: GitHub ⇄ bio.tools" doi.org/10.37044/osf.io/8ktd6_v1 "Here, we describe the tooling for a bidirectional bridge between the software developmentplatform GitHub and the ELIXIR bio.tools registry of life sciences software tools […] [Original post on fediscience.org]

Figure 3:Principal component analysis (PCA) of bio.tools entries with a GitHub repository basedon the numbers of contributors, forks (and network count), commits, pulls, releases, open issues,subscribers, watchers, stargazers and the average time to close issues. The colors represent thebio.toolsmaturitylevel, i.e.,Emerging,MatureorLegacy.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 31/01/2026

"BH25DE report: On the path to machine-actionabletraining materials" doi.org/10.37044/osf.io/un6cd_v1 "We demonstrated contentfederationvia themTeSS-Xplatform, enabling cross-instanceexchange and preparing for future integration with the EOSC […] [Original post on fediscience.org]

Figure 1: Curated crosswalks between MoDALIA and Schema.org metadata models for training materials.

The figure shows schema.org on the left side, SSSOM icon below an bidirectional arrow in the middle in a screenshot of a MoDALIA predicate definition on the right.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 22/01/2026

"BioHackEU25 report: METRICS - Monitoring of KeyPerformance Indicators for ELIXIR Services" doi.org/10.37044/osf.io/2jgk4_v1 "As part of the BioHackathon Europe 2025, we report on the activities of the METRICS project, which addresses the need for […] [Original post on fediscience.org]

Part of Figure 1:Photo of project poster for the mid-week presentation. The photo shows a A0 sheet notes from the meeting, including country flags, some key words, and the output of brainstorming.

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 06/01/2026

"QPX: Pathway analysis environment" doi.org/10.37044/osf.io/m37f2_v1 "Building on our work at DBCLS BioHackathon 2023 (BH23), where we introduced QPX andpromoted pathway modeling with WikiPathways (Pico et al., 2008) using PathVisio (Kutmon etal […] [Original post on fediscience.org]

Reposted by BioHackrXiv

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 01/01/2026

2025 has come to an end. This year, we published 45 preprints resulting from 16 different biohackathons. Sometimes reports come in late, as we will see. A quick list of #biohackathon meetings with preprints in 2025: - DBCLS BioHackathon 2023 #BH23JP: index.biohackrxiv.org/tag/BH23JP - […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 01/01/2026

2025 has come to an end. This year, we published 45 preprints resulting from 16 different biohackathons. Sometimes reports come in late, as we will see. A quick list of #biohackathon meetings with preprints in 2025: - DBCLS BioHackathon 2023 #BH23JP: index.biohackrxiv.org/tag/BH23JP - […]

fediscience.org

Original post on fediscience.org

BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 31/12/2025

"BioHackEU25 Report Project 16: MiCoReCa (Microbiome Community Resource Catalogue) - Towards Centralized Curation And Integration Of Microbiome Bioinformatics Resources" doi.org/10.37044/osf.io/jfpsx_v1 "To address this critical gap, the ELIXIR Microbiome Community proposes the […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 24/12/2025

"Enhancement of the Interoperability of Trait Data on Genetic Resources between Japan and France" doi.org/10.37044/osf.io/hw2fj_v1 "This paper presents the current status of trait data standardizationbetween the two organizations and outlines a direction for standardization. Trait data […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 19/12/2025

"Increasing FAIRness in agrosystem sciences and plantphenomics" doi.org/10.37044/osf.io/cy65w_v1 "As part of the de.NBI BioHackathon 2023, we here report about our progress on increasingFAIR-compliance in agrosystem sciences and plant phenomics. Through the collaborative effortsof the […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 18/12/2025

"Decoding Complex Genotype-Phenotype Interactions byDiscretizing the Genome" doi.org/10.37044/osf.io/xhkc3_v1 "ere, we introduce a new methodology for genotype-phenotype mapping based ongenomic hashes, unique representations of local genomic background. Each hash correspondsto a […]

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 18/12/2025

"MCP server tools with RDF shapes" doi.org/10.37044/osf.io/8qeh5_v1 "In this paper, we present the work we have done during the Japan Biohackathon 2025 about implementing MCP servers supported by RDF data shapes to improve natural language interactions with large RDF datasets using […]

fediscience.org

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BioHackrXiv @biohackrxiv.fediscience.org.ap.brid.gy · 18/12/2025

"BioHackEU25 report: Towards a Robust ValidationService for Data and Metadata in ARC RO-Crates" doi.org/10.37044/osf.io/zah28_v1 "For the metadata, validation will ensure structural and semantic compliance to the base RO-Crate specification and the ARC family of RO-Crate profiles […]

fediscience.org

Original post on fediscience.org