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

69 Tutorials

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

6 Slides

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

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

130 Merged Pull Requests

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

• 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
• Update 2026-05-18-galaxy-academy.md initiate ecology biodiversity add…
  template-and-tools

Reviewed 47 PRs

We love our community reviewing each other's work!

• 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
• Update Estamp URL
  ecology

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