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.

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

Tutorials

• Contributing to the Galaxy Training Material / Creating a new tutorial 🧐
• Climate / Pangeo ecosystem 101 for everyone - Introduction to Xarray Galaxy Tools 🧐
• Climate / Pangeo Notebook in Galaxy - Introduction to Xarray 🧐
• Climate / Visualize Climate data with Panoply netCDF viewer 🧐
• Epigenetics / ATAC-Seq data analysis 🧐
• Introduction to Galaxy Analyses / Introduction to Genomics and Galaxy 🧐
• 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 / Galaxy Interactive Tools ✍️
• Using Galaxy and Managing your Data / RStudio in Galaxy 🧐
• Galaxy Server administration / Galaxy Monitoring with Reports 🧐
• Ecology / Data submission using ENA upload Tool ✍️ ⚙️ 🧐
• Ecology / Metabarcoding/eDNA through Obitools ✍️ 🧐
• Ecology / QGIS Web Feature Services ✍️ 🧐
• Ecology / RAD-Seq to construct genetic maps ✍️ 🧐
• Ecology / RAD-Seq de-novo data analysis ✍️ 🧐
• Ecology / Biodiversity data exploration ✍️ 🧐
• Ecology / Compute and analyze biodiversity metrics with PAMPA toolsuite ✍️ 🧐
• Ecology / Obis marine indicators ✍️ 🧐
• Ecology / Sentinel 2 biodiversity ✍️ 🧐
• Ecology / Cleaning GBIF data using OpenRefine ✍️ 🧐
• Ecology / Species distribution modeling ✍️ 🧐
• Ecology / Visualize EBV cube data with Panoply netCDF viewer ✍️ 🧐
• Ecology / Regional GAM ✍️ 🧐
• Ecology / Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities ✍️ 📝 🧐
• Ecology / Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS ✍️ 📝
• Ecology / Ecoregionalization workflow tutorial ⚙️ 🧐
• Ecology / Champs blocs indicators ✍️ 🧐
• Ecology / RAD-Seq Reference-based data analysis ✍️ 🧐
• Ecology / Cleaning GBIF data for the use in Ecology ✍️ 🧐
• Ecology / Production d'indicateurs champs de bloc ✍️ 🧐

Slides

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

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

Video Recordings

• Ecology / Metabarcoding/eDNA through Obitools 💬 🗣

GitHub Activity

github Issues Reported

110 Merged Pull Requests

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

• Openrefine tuto addition
  template-and-tools
  ecology
• Update tutorial.md good link ?
  fair
• Update ORGANISATIONS.yaml add ASOC Antarctic
  template-and-tools
  ecology
• Fix some typos
  ecology
• Update tutorial.md add tags
  ecology

Reviewed 34 PRs

We love our community reviewing each other's work!

• OpenRefine Tutorial Update pt 2
  ecology
• Openrefine tuto addition
  template-and-tools
  ecology
• Add ENA_Biodiv_submission Tutorial
  template-and-tools
  ecology
• Update tuto as Galaxy is not displaying properly file with too many columns
  ecology
• Add Ecoregionalization_tutorial
  work-in-progress
  template-and-tools
  ecology

News

External Links

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