NFDI4Microbiota Annual Conference 2025 - “From Lab to Publication: Bridging the Gap with Best Practices”

Session

From Pipelines to Portals: Next-Generation Tools for Microbiome Analysis

30 Sept 2025, 15:45

Room C (ZB MED)

Description

Workshops for the following target audience:

• Bioinformaticians, software developers, computational biologists
• All those who are interested in the workshop topics

11. Workshop 7: Identifying Identifiers: Harnessing StrainInfo’s tools to find and resolve strain designations in literature and metadata

Artur Lissin (DSMZ)

30/09/2025, 15:45

Extracting meaningful biological entities (e.g. sequence accession numbers and species names) from unstructured text is an essential yet complex task. In microbiology, the identification is further complicated by the use of different designations (e.g. DSM 20543 and LMG 28910) for the same strain. Learn how to identify strain designations in literature and sequence metadata by leveraging...

12. Workshop 8: Federated and FAIR: Scalable Data Management with Aruna v3 (Part I)

Jannis Hochmuth (Justus-Liebig-University Giessen), Lukas Brehm (Justus-Liebig-University Giessen)

01/10/2025, 13:30

Modern microbiome research, as addressed by NFDI4Microbiota, depends on scalable and interoperable infrastructures. Aruna v3 introduces a federation-first approach to research data management, eliminating central coordination while preserving institutional autonomy. Built on peer-to-peer technologies, Aruna ensures secure and efficient metadata replication, data locality-aware compute...

18. Workshop 8: Federated and FAIR: Scalable Data Management with Aruna v3 (Part II)

Jannis Hochmuth (Justus-Liebig-University Giessen), Lukas Brehm (Justus-Liebig-University Giessen)

01/10/2025, 15:30

Modern microbiome research, as addressed by NFDI4Microbiota, depends on scalable and interoperable infrastructures. Aruna v3 introduces a federation-first approach to research data management, eliminating central coordination while preserving institutional autonomy. Built on peer-to-peer technologies, Aruna ensures secure and efficient metadata replication, data locality-aware compute...

13. Workshop 9: CAMI benchmarking portal: towards standards and best practices in computational metagenome analyses

Fernando Meyer (Helmholtz Centre for Infection Research)

02/10/2025, 10:45

We invite you to a hands-on workshop on the CAMI Benchmarking Portal (https://cami-challenge.org, Meyer et al., NAR 2025), an online platform that automates comprehensive evaluation and ranking of software for metagenomic analyses. The portal builds upon the metrics, datasets, and best practices established by the community-driven initiative for Critical Assessment of Metagenome Interpretation...