Yvan Le Bras

Affiliations

Contributions

The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.

5 Editorial Roles

This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.

• Topic: Foundations of Data Science
• Topic: Ecology
• Topic: Sequence analysis
• Learning Pathway: Introduction to Galaxy and Ecological data analysis
• Learning Pathway: Gallantries Grant - Intellectual Output 4 - Data analysis and modelling for evidence and hypothesis generation and knowledge discovery

71 Tutorials

• FAIR Data, Workflows, and Research / Best practices for workflows in GitHub repositories 🧐
• FAIR Data, Workflows, and Research / RO-Crate in Python 🧐
• FAIR Data, Workflows, and Research / Exporting Workflow Run RO-Crates from Galaxy 🧐
• FAIR Data, Workflows, and Research / Submitting workflows to LifeMonitor 🧐
• Development in Galaxy / nb2workflow: Generating Galaxy Tools From Jupyter Notebooks 🧐
• Development in Galaxy / Galaxy Interactive Tools ✍️
• Contributing to the Galaxy Training Material / Creating a new tutorial 🧐
• Galaxy Server administration / Galaxy Monitoring with Reports 🧐
• Imaging / AI pipeline for annotating marine species (Project Moorev - Marine) ✍️
• Introduction to Galaxy Analyses / Introduction to Genomics and Galaxy 🧐
• Climate / Pangeo Notebook in Galaxy - Introduction to Xarray 🧐
• Climate / Visualize Climate data with Panoply netCDF viewer 🧐
• Climate / Pangeo ecosystem 101 for everyone - Introduction to Xarray Galaxy Tools 🧐
• Epigenetics / ATAC-Seq data analysis 🧐
• Ecology / Life Traits Ecoregionalization workflow ✍️ 🧐
• Ecology / Species distribution modeling ✍️ 🧐
• Ecology / RAD-Seq de-novo data analysis ✍️ 🧐
• Ecology / Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS ✍️ 📝
• Ecology / Visualize EBV cube data with Panoply netCDF viewer ✍️ 🧐
• Ecology / Obis marine indicators ✍️ 🧐
• Ecology / Cleaning GBIF data using OpenRefine ✍️ 🧐
• Ecology / SAM3 – AI-based Semantic Segmentation of marine biodiversity Images and Videos ✍️ 🧐
• Ecology / Champs blocs indicators ✍️ 🧐
• Ecology / Cleaning GBIF data for the use in Ecology ✍️ 🧐
• Ecology / RAD-Seq to construct genetic maps ✍️ 🧐
• Ecology / Sentinel 2 biodiversity ✍️ 🧐
• Ecology / Taxonomic Analysis of eDNA 🧐
• Ecology / Regional GAM ✍️ 🧐
• Ecology / Ecoregionalization workflow tutorial ⚙️ 🧐
• Ecology / Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities ✍️ 📝 🧐
• Ecology / Metabarcoding/eDNA through Obitools ✍️ 🧐
• Ecology / Biodiversity data exploration ✍️ 🧐
• Ecology / Data submission using ENA upload Tool ✍️ ⚙️ 🧐
• Ecology / Compute and analyze biodiversity metrics with PAMPA toolsuite ✍️ 🧐
• Ecology / Object detection with YOLO ✍️ 🧐
• Ecology / Audio data annotation with NEAL (Nature + Energy Audio labeler) ✍️ 🧐
• Ecology / QGIS Web Feature Services ✍️ 🧐
• Ecology / Phylodiversity analysis quick tutorial ✍️ 🧐
• Ecology / RAD-Seq Reference-based data analysis ✍️ 🧐
• Using Galaxy and Managing your Data / RStudio in Galaxy 🧐
• Imaging / Pipeline d'annotation d'espèces marines par IA (Project Moorev - Marine) ✍️
• Ecology / SAM3 – Segmentation sémantique d'images et de vidéos via IA ✍️ 🧐
• Ecology / Production d'indicateurs champs de bloc ✍️ 🧐

6 Slides

• Variant Analysis / Introduction to Variant analysis ✍️
• Assembly / De Bruijn Graph Assembly 🧐
• Galaxy Server administration / Server: Other 🧐
• Climate / The Pangeo ecosystem 🧐
• Climate / Pangeo ecosystem 101 for everyone 🧐
• Epigenetics / Introduction to DNA Methylation data analysis ✍️

6 FAQs

• It says I already have an account when registering for ecology.usegalaxy.eu
• Changer le type de données
• Importer via un lien
• Créer un nouvel history
• Launch RStudio
• Stop RStudio

2 Video Recordings

• Ecology / Metabarcoding/eDNA through Obitools 💬 🗣

2 Events

• Galaxy Ecology training and collabroation fest 🎪
• Galaxy Training Academy 2026 🧑‍🏫

Your Contributor Card

GitHub Activity

github Issues Reported

131 Merged Pull Requests

See all of the github Pull Requests and github Commits by Yvan Le Bras.

• Update interactive tool id link in tutorial
  climate
• Update ORGANISATIONS.yaml add Data Terra logo
  template-and-tools
• update output files related to change of column lat and long
  ecology
• Update tutorial.md update column number
  ecology
• Update 2026-05-18-galaxy-academy.md add GAIA Data funding
  template-and-tools

Reviewed 48 PRs

We love our community reviewing each other's work!

• Add kilian
  template-and-tools
• Small Changes to the Ecoregionalization Tutorial
  template-and-tools
  ecology
• Add PaulineSGN as code owner for ecology topic
  template-and-tools
• Add new tutorial for SAM3
  template-and-tools
  ecology
• Create tutorial.md yolo detection marine ecology
  template-and-tools
  ecology

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