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Training on accessing, processing, and curating datasets 2025

Data controller
Jorge Oliveira
dpo@biodata.pt
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→ Europe/Lisbon
session 2 :: Faculty of Pharmacy of the University of Porto (session 1 :: Online)

session 2 :: Faculty of Pharmacy of the University of Porto

session 1 :: Online
David Palecek (CCMAR)
Description

EMO-BON establishes a long-term omics observatory for marine biodiversity through bimonthly sampling of coastal waters and both soft and hard sediments across more than 20 stations in Europe. Standard operating procedures are applied for sample collection, sequencing, and workflow analysis to ensure consistent taxonomic and functional annotation. FAIR principles are implemented using appropriate ontologies, RO-Crates, and a Python-based data analysis toolkit prepared for deployment in Virtual Research Environments (VREs).

Session 1 :: November 3rd :: Online

Accessing and Processing EMO-BON Metagenomic Data

Session 2 :: November 17th :: Faculty of Pharmacy of the University of Porto

EMO-BON Metagenomics: From Backend Integration to Frontend Processing

 

 

Within the scope of PNCADAI: Measure RE-C05-i08 - More Digital Science of the PRR - Recovery and Resilience Plan

BioData.pt | ELIXIR-PT
  • Monday 3 November
    • 14:00 → 15:30
      Session 1 – 3rd Nov: Accessing and Processing EMO-BON Metagenomic Data - Online
    • 14:00 → 14:15
      Welcome and Course Introduction 15m
      Speaker: Luciana Peixoto (BioData.pt)
    • 14:15 → 14:30
      Introduction to the EMO-BON campaign 15m
      Speaker: David Palecek (CCMAR)
    • 14:30 → 15:00
      Demonstration: Exploring the Data 30m
      Speaker: David Palecek (CCMAR)
    • 15:00 → 15:30
      Discussion and Questions 30m
      Speaker: David Palecek (CCMAR)
  • Monday 17 November
    • 10:30 → 13:00
      Session 2 – 17th Nov: EMO-BON Metagenomics: From Backend Integration to Frontend Processing - Faculty of Pharmacy of the University of Porto

      Prerequisites: A working Jupyter Notebook environment and participation in (or familiarity with) the Session 1 recording.

    • 10:40 → 11:00
      Session 2 overview 20m
      Speaker: David Palecek (CCMAR)
    • 11:00 → 11:30
      Backend Demonstration (RO-Crates and SPARQL Endpoint) 30m
      Speaker: David Palecek (CCMAR)
    • 11:30 → 12:14
      Using and Extending Analysis Dashboards 44m
      Speaker: David Palecek (CCMAR)
    • 12:15 → 13:00
      Challenge: Integration with Other MGnify Datasets 45m
      Speaker: David Palecek
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