#biohackathon — Public Fediverse posts

"Snakemake Hackathon 2026" https://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 extensions, and lowering the entry barrier for novice users while preserving full reproducibility. Here we report on the Snakemake Hackathon 2026, convened in Munich, Germany (9–13 March 2026) with more than 40 participants representing academia, industry, and national-level research infrastructure." https://index.biohackrxiv.org/2026/04/27/h6zqj.html

#SnakemakeHackathon2026 #biohackathon #snakemake

"Snakemake Hackathon 2026" https://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 extensions, and lowering the entry barrier for novice users while preserving full reproducibility. Here we report on the Snakemake Hackathon 2026, convened in Munich, Germany (9–13 March 2026) with more than 40 participants representing academia, industry, and national-level research infrastructure." https://index.biohackrxiv.org/2026/04/27/h6zqj.html

#SnakemakeHackathon2026 #biohackathon #snakemake

"Snakemake Hackathon 2026" https://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 extensions, and lowering the entry barrier for novice users while preserving full reproducibility. Here we report on the Snakemake Hackathon 2026, convened in Munich, Germany (9–13 March 2026) with more than 40 participants representing academia, industry, and national-level research infrastructure." https://index.biohackrxiv.org/2026/04/27/h6zqj.html

#SnakemakeHackathon2026 #biohackathon #snakemake

"Snakemake Hackathon 2026" https://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 extensions, and lowering the entry barrier for novice users while preserving full reproducibility. Here we report on the Snakemake Hackathon 2026, convened in Munich, Germany (9–13 March 2026) with more than 40 participants representing academia, industry, and national-level research infrastructure." https://index.biohackrxiv.org/2026/04/27/h6zqj.html

#SnakemakeHackathon2026 #biohackathon #snakemake

"Snakemake Hackathon 2026" https://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 extensions, and lowering the entry barrier for novice users while preserving full reproducibility. Here we report on the Snakemake Hackathon 2026, convened in Munich, Germany (9–13 March 2026) with more than 40 participants representing academia, industry, and national-level research infrastructure." https://index.biohackrxiv.org/2026/04/27/h6zqj.html

#SnakemakeHackathon2026 #biohackathon #snakemake

"Improving package annotation in metabolomics andproteomics via robust, ontology-driven LLM integration" https://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 the Model Context Protocol (MCP), an emerging open standard that specifies how LLMs call external functions, using metabolomics as a domain use case. We developed an MCP-based workflow that grounds tool descriptions in the EDAM ontology (Ison et al., 2013) (Black et al., 2022), improving reproducibility and semantic precision." https://osf.io/preprints/biohackrxiv/x5v6b_v1

#biohackathon #BioHack25EU #ontology #edam

"Improving package annotation in metabolomics andproteomics via robust, ontology-driven LLM integration" https://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 the Model Context Protocol (MCP), an emerging open standard that specifies how LLMs call external functions, using metabolomics as a domain use case. We developed an MCP-based workflow that grounds tool descriptions in the EDAM ontology (Ison et al., 2013) (Black et al., 2022), improving reproducibility and semantic precision." https://osf.io/preprints/biohackrxiv/x5v6b_v1

#biohackathon #BioHack25EU #ontology #edam

"Improving package annotation in metabolomics andproteomics via robust, ontology-driven LLM integration" https://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 the Model Context Protocol (MCP), an emerging open standard that specifies how LLMs call external functions, using metabolomics as a domain use case. We developed an MCP-based workflow that grounds tool descriptions in the EDAM ontology (Ison et al., 2013) (Black et al., 2022), improving reproducibility and semantic precision." https://osf.io/preprints/biohackrxiv/x5v6b_v1

#biohackathon #BioHack25EU #ontology #edam

"Improving package annotation in metabolomics andproteomics via robust, ontology-driven LLM integration" https://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 the Model Context Protocol (MCP), an emerging open standard that specifies how LLMs call external functions, using metabolomics as a domain use case. We developed an MCP-based workflow that grounds tool descriptions in the EDAM ontology (Ison et al., 2013) (Black et al., 2022), improving reproducibility and semantic precision." https://osf.io/preprints/biohackrxiv/x5v6b_v1

#biohackathon #BioHack25EU #ontology #edam

"Minimal information standardization of phenomic experimental data in animals" https://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 studies, all ofwhich are particularly important in light of the 3Rs principles for animal experiments (replace, reduce, refine) (Hubrecht & Carter, 2019). Within ELIXIR, the Domestic Animals Genome andPhenome Focus Group (since December 2025 an ELIXIR community) emerged to establishstandardized practices that enhance the quality and interoperability of animal research data" http://index.biohackrxiv.org/2026/04/10/ncrkm.html

#phenomics #3r #biohackathon #BioHackEU25

"Minimal information standardization of phenomic experimental data in animals" https://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 studies, all ofwhich are particularly important in light of the 3Rs principles for animal experiments (replace, reduce, refine) (Hubrecht & Carter, 2019). Within ELIXIR, the Domestic Animals Genome andPhenome Focus Group (since December 2025 an ELIXIR community) emerged to establishstandardized practices that enhance the quality and interoperability of animal research data" http://index.biohackrxiv.org/2026/04/10/ncrkm.html

#phenomics #3r #biohackathon #BioHackEU25

"Evolving FAIR Image Analysis in Galaxy for Cross-domain and AI-ready Applications" https://doi.org/10.37044/osf.io/tsxby_v1

"The project addressed three major challenges:1. Improving semantic annotation for image analysis resources.2. Introducing content-based reproducibility validation mechanisms.3. Streamlining tools and training materials for accessible bioimage analysis.To achieve these goals, the project involved participants with heterogeneous backgroundsfrom different institutions, including ELIXIR, Euro-BioImaging, and the ISCC Foundation,joining both on-site and online." http://index.biohackrxiv.org/2026/03/31/tsxby.html

#biohackathon #BioHack25EU

new blog post: "SWAT4HCLS 2026 Amsterdam this week" https://doi.org/10.59350/mztnx-y1770 https://chem-bla-ics.linkedchemistry.info/2026/03/22/swat4hcls-2026-amsterdam-this-week.html

"Tomorrow, SWAT4HCLS 2026 will start, again in Amsterdam. The first SWAT4LS I attended was also in Amsterdam, and the second meeting in Amsterdam I was also there. And I was in Cambridge (see this post), Antwerp (no post), and at least to one of the two Leiden meetings (also no posts, it seems)."

Replies show up in the blog post.

#biohackathon #swat4hcls

@rupdecat @biohackrxiv and many more #biohackathon meetings with reports here: http://index.biohackrxiv.org/meetings/ :)

"Tools to develop constraint-based models in R: adapting existing toolboxes" https://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 model simulation with the functionalities for model reconstruction and analysis available in the widely used RAVEN toolbox in Matlab." https://index.biohackrxiv.org/2026/03/13/ey4c5.html

#biohackathon #biohack25EU

"Bidirectional bridge: GitHub ⇄ bio.tools" https://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 and dataresources. The developed bridge maps and improves metadata records across these twoplatforms, thereby benefiting both and helping make research software more FAIR: findable,accessible, interoperable and reusable" https://osf.io/preprints/biohackrxiv/8ktd6_v1

#BH25EU #BioHack25EU #biohackathon #ELIXIREurope #bioTools

"BH25DE report: On the path to machine-actionabletraining materials" https://doi.org/10.37044/osf.io/un6cd_v1

"We demonstrated contentfederationvia themTeSS-Xplatform, enabling cross-instanceexchange and preparing for future integration with the EOSC federation. To enhance interop-erability, we indexed relevant ontologies and curated semanticcrosswalksbetween establishedmetadata models, specificallyMoDALIAandSchema.org/Bioschemas."

#schema #bioschemas #BH25DE #biohackathon

"BH25DE report: On the path to machine-actionabletraining materials" https://doi.org/10.37044/osf.io/un6cd_v1

"We demonstrated contentfederationvia themTeSS-Xplatform, enabling cross-instanceexchange and preparing for future integration with the EOSC federation. To enhance interop-erability, we indexed relevant ontologies and curated semanticcrosswalksbetween establishedmetadata models, specificallyMoDALIAandSchema.org/Bioschemas."

#schema #bioschemas #BH25DE #biohackathon

"BH25DE report: On the path to machine-actionabletraining materials" https://doi.org/10.37044/osf.io/un6cd_v1

"We demonstrated contentfederationvia themTeSS-Xplatform, enabling cross-instanceexchange and preparing for future integration with the EOSC federation. To enhance interop-erability, we indexed relevant ontologies and curated semanticcrosswalksbetween establishedmetadata models, specificallyMoDALIAandSchema.org/Bioschemas."

#schema #bioschemas #BH25DE #biohackathon

"BH25DE report: On the path to machine-actionabletraining materials" https://doi.org/10.37044/osf.io/un6cd_v1

"We demonstrated contentfederationvia themTeSS-Xplatform, enabling cross-instanceexchange and preparing for future integration with the EOSC federation. To enhance interop-erability, we indexed relevant ontologies and curated semanticcrosswalksbetween establishedmetadata models, specificallyMoDALIAandSchema.org/Bioschemas."

#schema #bioschemas #BH25DE #biohackathon

"BH25DE report: On the path to machine-actionabletraining materials" https://doi.org/10.37044/osf.io/un6cd_v1

"We demonstrated contentfederationvia themTeSS-Xplatform, enabling cross-instanceexchange and preparing for future integration with the EOSC federation. To enhance interop-erability, we indexed relevant ontologies and curated semanticcrosswalksbetween establishedmetadata models, specificallyMoDALIAandSchema.org/Bioschemas."

#schema #bioschemas #BH25DE #biohackathon

"BioHackEU25 report: METRICS - Monitoring of KeyPerformance Indicators for ELIXIR Services" https://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 consistent and transparent evaluation of services across ELIXIR and related initiatives using KPIs. The project brings together experts from multiple ELIXIR Nodes and scientific domains to identify, harmonise, and semantically model KPIs that reflect service quality, usage, sustainability, and impact."

#ELIXIREurope #BioHackathon #BioHackEU25

"BioHackEU25 report: METRICS - Monitoring of KeyPerformance Indicators for ELIXIR Services" https://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 consistent and transparent evaluation of services across ELIXIR and related initiatives using KPIs. The project brings together experts from multiple ELIXIR Nodes and scientific domains to identify, harmonise, and semantically model KPIs that reflect service quality, usage, sustainability, and impact."

#ELIXIREurope #BioHackathon #BioHackEU25

"BioHackEU25 report: METRICS - Monitoring of KeyPerformance Indicators for ELIXIR Services" https://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 consistent and transparent evaluation of services across ELIXIR and related initiatives using KPIs. The project brings together experts from multiple ELIXIR Nodes and scientific domains to identify, harmonise, and semantically model KPIs that reflect service quality, usage, sustainability, and impact."

#ELIXIREurope #BioHackathon #BioHackEU25

"BioHackEU25 report: METRICS - Monitoring of KeyPerformance Indicators for ELIXIR Services" https://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 consistent and transparent evaluation of services across ELIXIR and related initiatives using KPIs. The project brings together experts from multiple ELIXIR Nodes and scientific domains to identify, harmonise, and semantically model KPIs that reflect service quality, usage, sustainability, and impact."

#ELIXIREurope #BioHackathon #BioHackEU25

"BioHackEU25 report: METRICS - Monitoring of KeyPerformance Indicators for ELIXIR Services" https://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 consistent and transparent evaluation of services across ELIXIR and related initiatives using KPIs. The project brings together experts from multiple ELIXIR Nodes and scientific domains to identify, harmonise, and semantically model KPIs that reflect service quality, usage, sustainability, and impact."

#ELIXIREurope #BioHackathon #BioHackEU25

RE: https://waag.social/@henk/115886429344110445

sounds like a good spot for a #biohackathon too :)

"QPX: Pathway analysis environment" https://doi.org/10.37044/osf.io/m37f2_v1

"Building on our work at DBCLS BioHackathon 2023 (BH23), where we introduced QPX and promoted pathway modeling with WikiPathways (Pico et al., 2008) using PathVisio (Kutmon etal., 2015), we now focused on creating new pathway diagrams for diverse species and registering them in WikiPathways with functional annotations. In parallel, we deployed WikiPathways node data into Elasticsearch to enable fast and flexible search and integration of pathway information." https://osf.io/m37f2_v1

#biohackathon #BH25JP #wikipathways

"QPX: Pathway analysis environment" https://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., 2015), we now focused on creating new pathway diagrams for diverse species and registeringthem in WikiPathways with functional annotations. In parallel, we deployed WikiPathwaysnode data into Elasticsearch to enable fast and flexible search and integration of pathwayinformation." https://doi.org/10.37044/osf.io/m37f2_v1

#biohackathon #BH25JP #wikipathways

"QPX: Pathway analysis environment" https://doi.org/10.37044/osf.io/m37f2_v1

"Building on our work at DBCLS BioHackathon 2023 (BH23), where we introduced QPX and promoted pathway modeling with WikiPathways (Pico et al., 2008) using PathVisio (Kutmon etal., 2015), we now focused on creating new pathway diagrams for diverse species and registering them in WikiPathways with functional annotations. In parallel, we deployed WikiPathways node data into Elasticsearch to enable fast and flexible search and integration of pathway information." https://osf.io/m37f2_v1

#biohackathon #BH25JP #wikipathways

"QPX: Pathway analysis environment" https://doi.org/10.37044/osf.io/m37f2_v1

"Building on our work at DBCLS BioHackathon 2023 (BH23), where we introduced QPX and promoted pathway modeling with WikiPathways (Pico et al., 2008) using PathVisio (Kutmon etal., 2015), we now focused on creating new pathway diagrams for diverse species and registering them in WikiPathways with functional annotations. In parallel, we deployed WikiPathways node data into Elasticsearch to enable fast and flexible search and integration of pathway information." https://osf.io/m37f2_v1

#biohackathon #BH25JP #wikipathways

"QPX: Pathway analysis environment" https://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., 2015), we now focused on creating new pathway diagrams for diverse species and registeringthem in WikiPathways with functional annotations. In parallel, we deployed WikiPathwaysnode data into Elasticsearch to enable fast and flexible search and integration of pathwayinformation." https://doi.org/10.37044/osf.io/m37f2_v1

#biohackathon #BH25JP #wikipathways

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: https://index.biohackrxiv.org/tag/BH23JP
- DBCLS BioHackathon 2024 #BH24JP: https://index.biohackrxiv.org/tag/BH24JP
- DBCLS BioHackathon 2025 #BH25JP: https://index.biohackrxiv.org/tag/BH25JP

- BioHackathon Europe 2023 #BH23EU: https://index.biohackrxiv.org/tag/BH23EU
- BioHackathon Europe 2024 #BH24EU: https://index.biohackrxiv.org/tag/BH24EU
- BioHackathon Europe 2025 #BioHackEU25: https://index.biohackrxiv.org/tag/BioHackEU25

- 2nd BioHackathon Germany 2023 #BH23DE: https://index.biohackrxiv.org/tag/BH23DE
- 3rd BioHackathon Germany 2024 #BH24DE: https://index.biohackrxiv.org/tag/BH24DE

- 16th International SWAT4HCLS Conference 2025 #SWAT4HCLS25: https://index.biohackrxiv.org/tag/SWAT4HCLS25

And seven others! A full overview is found on this page: https://index.biohackrxiv.org/meetings/

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: https://index.biohackrxiv.org/tag/BH23JP
- DBCLS BioHackathon 2024 #BH24JP: https://index.biohackrxiv.org/tag/BH24JP
- DBCLS BioHackathon 2025 #BH25JP: https://index.biohackrxiv.org/tag/BH25JP

- BioHackathon Europe 2023 #BH23EU: https://index.biohackrxiv.org/tag/BH23EU
- BioHackathon Europe 2024 #BH24EU: https://index.biohackrxiv.org/tag/BH24EU
- BioHackathon Europe 2025 #BioHackEU25: https://index.biohackrxiv.org/tag/BioHackEU25

- 2nd BioHackathon Germany 2023 #BH23DE: https://index.biohackrxiv.org/tag/BH23DE
- 3rd BioHackathon Germany 2024 #BH24DE: https://index.biohackrxiv.org/tag/BH24DE

- 16th International SWAT4HCLS Conference 2025 #SWAT4HCLS25: https://index.biohackrxiv.org/tag/SWAT4HCLS25

And seven others! A full overview is found on this page: https://index.biohackrxiv.org/meetings/

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: https://index.biohackrxiv.org/tag/BH23JP
- DBCLS BioHackathon 2024 #BH24JP: https://index.biohackrxiv.org/tag/BH24JP
- DBCLS BioHackathon 2025 #BH25JP: https://index.biohackrxiv.org/tag/BH25JP

- BioHackathon Europe 2023 #BH23EU: https://index.biohackrxiv.org/tag/BH23EU
- BioHackathon Europe 2024 #BH24EU: https://index.biohackrxiv.org/tag/BH24EU
- BioHackathon Europe 2025 #BioHackEU25: https://index.biohackrxiv.org/tag/BioHackEU25

- 2nd BioHackathon Germany 2023 #BH23DE: https://index.biohackrxiv.org/tag/BH23DE
- 3rd BioHackathon Germany 2024 #BH24DE: https://index.biohackrxiv.org/tag/BH24DE

- 16th International SWAT4HCLS Conference 2025 #SWAT4HCLS25: https://index.biohackrxiv.org/tag/SWAT4HCLS25

And seven others! A full overview is found on this page: https://index.biohackrxiv.org/meetings/

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: https://index.biohackrxiv.org/tag/BH23JP
- DBCLS BioHackathon 2024 #BH24JP: https://index.biohackrxiv.org/tag/BH24JP
- DBCLS BioHackathon 2025 #BH25JP: https://index.biohackrxiv.org/tag/BH25JP

- BioHackathon Europe 2023 #BH23EU: https://index.biohackrxiv.org/tag/BH23EU
- BioHackathon Europe 2024 #BH24EU: https://index.biohackrxiv.org/tag/BH24EU
- BioHackathon Europe 2025 #BioHackEU25: https://index.biohackrxiv.org/tag/BioHackEU25

- 2nd BioHackathon Germany 2023 #BH23DE: https://index.biohackrxiv.org/tag/BH23DE
- 3rd BioHackathon Germany 2024 #BH24DE: https://index.biohackrxiv.org/tag/BH24DE

- 16th International SWAT4HCLS Conference 2025 #SWAT4HCLS25: https://index.biohackrxiv.org/tag/SWAT4HCLS25

And seven others! A full overview is found on this page: https://index.biohackrxiv.org/meetings/

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: https://index.biohackrxiv.org/tag/BH23JP
- DBCLS BioHackathon 2024 #BH24JP: https://index.biohackrxiv.org/tag/BH24JP
- DBCLS BioHackathon 2025 #BH25JP: https://index.biohackrxiv.org/tag/BH25JP

- BioHackathon Europe 2023 #BH23EU: https://index.biohackrxiv.org/tag/BH23EU
- BioHackathon Europe 2024 #BH24EU: https://index.biohackrxiv.org/tag/BH24EU
- BioHackathon Europe 2025 #BioHackEU25: https://index.biohackrxiv.org/tag/BioHackEU25

- 2nd BioHackathon Germany 2023 #BH23DE: https://index.biohackrxiv.org/tag/BH23DE
- 3rd BioHackathon Germany 2024 #BH24DE: https://index.biohackrxiv.org/tag/BH24DE

- 16th International SWAT4HCLS Conference 2025 #SWAT4HCLS25: https://index.biohackrxiv.org/tag/SWAT4HCLS25

And seven others! A full overview is found on this page: https://index.biohackrxiv.org/meetings/

"BioHackEU25 Report Project 16: MiCoReCa (Microbiome Community Resource Catalogue) - Towards Centralized Curation And Integration Of Microbiome Bioinformatics Resources" https://doi.org/10.37044/osf.io/jfpsx_v1

"To address this critical gap, the ELIXIR Microbiome Community proposes the development of MiCoReCa (Microbiome Community Resource Catalogue), a comprehensive, dynamic, open-access catalogue of microbiome-related bioinformatics resources (tools, workflows, training, standards, and databases). Leveraging our community’s expertise, this initiative will utilize standardized ontologies like EDAM and cross-reference established platforms like bio.tools and WorkflowHub to create a centralized, findable inventory." https://index.biohackrxiv.org/2025/12/31/jfpsx.html

#biohackathon #elixireurope #BIoHackEU25

"BioHackEU25 Report Project 16: MiCoReCa (Microbiome Community Resource Catalogue) - Towards Centralized Curation And Integration Of Microbiome Bioinformatics Resources" https://doi.org/10.37044/osf.io/jfpsx_v1

"To address this critical gap, the ELIXIR Microbiome Community proposes the development of MiCoReCa (Microbiome Community Resource Catalogue), a comprehensive, dynamic, open-access catalogue of microbiome-related bioinformatics resources (tools, workflows, training, standards, and databases). Leveraging our community’s expertise, this initiative will utilize standardized ontologies like EDAM and cross-reference established platforms like bio.tools and WorkflowHub to create a centralized, findable inventory." https://index.biohackrxiv.org/2025/12/31/jfpsx.html

#biohackathon #elixireurope #BIoHackEU25

"BioHackEU25 Report Project 16: MiCoReCa (Microbiome Community Resource Catalogue) - Towards Centralized Curation And Integration Of Microbiome Bioinformatics Resources" https://doi.org/10.37044/osf.io/jfpsx_v1

"To address this critical gap, the ELIXIR Microbiome Community proposes the development of MiCoReCa (Microbiome Community Resource Catalogue), a comprehensive, dynamic, open-access catalogue of microbiome-related bioinformatics resources (tools, workflows, training, standards, and databases). Leveraging our community’s expertise, this initiative will utilize standardized ontologies like EDAM and cross-reference established platforms like bio.tools and WorkflowHub to create a centralized, findable inventory." https://index.biohackrxiv.org/2025/12/31/jfpsx.html

#biohackathon #elixireurope #BIoHackEU25

"BioHackEU25 Report Project 16: MiCoReCa (Microbiome Community Resource Catalogue) - Towards Centralized Curation And Integration Of Microbiome Bioinformatics Resources" https://doi.org/10.37044/osf.io/jfpsx_v1

"To address this critical gap, the ELIXIR Microbiome Community proposes the development of MiCoReCa (Microbiome Community Resource Catalogue), a comprehensive, dynamic, open-access catalogue of microbiome-related bioinformatics resources (tools, workflows, training, standards, and databases). Leveraging our community’s expertise, this initiative will utilize standardized ontologies like EDAM and cross-reference established platforms like bio.tools and WorkflowHub to create a centralized, findable inventory." https://index.biohackrxiv.org/2025/12/31/jfpsx.html

#biohackathon #elixireurope #BIoHackEU25

"BioHackEU25 Report Project 16: MiCoReCa (Microbiome Community Resource Catalogue) - Towards Centralized Curation And Integration Of Microbiome Bioinformatics Resources" https://doi.org/10.37044/osf.io/jfpsx_v1

"To address this critical gap, the ELIXIR Microbiome Community proposes the development of MiCoReCa (Microbiome Community Resource Catalogue), a comprehensive, dynamic, open-access catalogue of microbiome-related bioinformatics resources (tools, workflows, training, standards, and databases). Leveraging our community’s expertise, this initiative will utilize standardized ontologies like EDAM and cross-reference established platforms like bio.tools and WorkflowHub to create a centralized, findable inventory." https://index.biohackrxiv.org/2025/12/31/jfpsx.html

#biohackathon #elixireurope #BIoHackEU25

"Mining the potential of knowledge graphs for metadata on training" https://doi.org/10.37044/osf.io/gv2ac_v1

"A dedicated pipeline parses RDF/Turtle dumps, deduplicates entries, and builds rich indexes (keyword, provider, location, date, topic) that power a Model Context Protocol (MCP) server. The MCP offers live and offline search tools—including keyword, provider, location, date, topic, and SPARQL queries" https://index.biohackrxiv.org/2025/11/29/gv2ac.html

#biohackathon #BioHackEU25 #BH25EU #SPARQL #MCP

"Mining the potential of knowledge graphs for metadata on training" https://doi.org/10.37044/osf.io/gv2ac_v1

"A dedicated pipeline parses RDF/Turtle dumps, deduplicates entries, and builds rich indexes (keyword, provider, location, date, topic) that power a Model Context Protocol (MCP) server. The MCP offers live and offline search tools—including keyword, provider, location, date, topic, and SPARQL queries" https://index.biohackrxiv.org/2025/11/29/gv2ac.html

#biohackathon #BioHackEU25 #BH25EU #SPARQL #MCP

"Mining the potential of knowledge graphs for metadata on training" https://doi.org/10.37044/osf.io/gv2ac_v1

"A dedicated pipeline parses RDF/Turtle dumps, deduplicates entries, and builds rich indexes (keyword, provider, location, date, topic) that power a Model Context Protocol (MCP) server. The MCP offers live and offline search tools—including keyword, provider, location, date, topic, and SPARQL queries" https://index.biohackrxiv.org/2025/11/29/gv2ac.html

#biohackathon #BioHackEU25 #BH25EU #SPARQL #MCP

"Mining the potential of knowledge graphs for metadata on training" https://doi.org/10.37044/osf.io/gv2ac_v1

"A dedicated pipeline parses RDF/Turtle dumps, deduplicates entries, and builds rich indexes (keyword, provider, location, date, topic) that power a Model Context Protocol (MCP) server. The MCP offers live and offline search tools—including keyword, provider, location, date, topic, and SPARQL queries" https://index.biohackrxiv.org/2025/11/29/gv2ac.html

#biohackathon #BioHackEU25 #BH25EU #SPARQL #MCP

"Mining the potential of knowledge graphs for metadata on training" https://doi.org/10.37044/osf.io/gv2ac_v1

"A dedicated pipeline parses RDF/Turtle dumps, deduplicates entries, and builds rich indexes (keyword, provider, location, date, topic) that power a Model Context Protocol (MCP) server. The MCP offers live and offline search tools—including keyword, provider, location, date, topic, and SPARQL queries" https://index.biohackrxiv.org/2025/11/29/gv2ac.html

#biohackathon #BioHackEU25 #BH25EU #SPARQL #MCP

"A Blueprint for Open Science: How Transatlantic Teams Built and Deployed Knowledge Graphs to Enable Biological (AI) Models" https://doi.org/10.37044/osf.io/g4rk2_v1

"these projects and pipelines showcase methods for constructing KGs from existing biomedical datasets andexemplify the practical deployment of GraphRAG in real-world biomedical context, thereby advancing the biomedical sciences [..]" https://index.biohackrxiv.org/2025/11/26/g4rk2.html

#biohackathon #KGhack25 #KGhack #openscience #AWSOpen

"A Blueprint for Open Science: How Transatlantic Teams Built and Deployed Knowledge Graphs to Enable Biological (AI) Models" https://doi.org/10.37044/osf.io/g4rk2_v1

"these projects and pipelines showcase methods for constructing KGs from existing biomedical datasets andexemplify the practical deployment of GraphRAG in real-world biomedical context, thereby advancing the biomedical sciences [..]" https://index.biohackrxiv.org/2025/11/26/g4rk2.html

#biohackathon #KGhack25 #KGhack #openscience #AWSOpen

"A Blueprint for Open Science: How Transatlantic Teams Built and Deployed Knowledge Graphs to Enable Biological (AI) Models" https://doi.org/10.37044/osf.io/g4rk2_v1

"these projects and pipelines showcase methods for constructing KGs from existing biomedical datasets andexemplify the practical deployment of GraphRAG in real-world biomedical context, thereby advancing the biomedical sciences [..]" https://index.biohackrxiv.org/2025/11/26/g4rk2.html

#biohackathon #KGhack25 #KGhack #openscience #AWSOpen