Marie Josse

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.

4 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: Climate
• Topic: Ecology
• Learning Pathway: Discovering Galaxy through climate analysis
• Learning Pathway: Tool development for a nice & shiny subdomain

58 Tutorials

• FAIR Data, Workflows, and Research / Exporting Workflow Run RO-Crates from Galaxy 📝 🧐
• Development in Galaxy / Galaxy Interactive Tools ✍️ 🧐
• Contributing to the Galaxy Training Material / Tools, Data, and Workflows for tutorials 🧐
• Galaxy Server administration / Adding file-sources to Galaxy ✍️
• Galaxy Server administration / Create a subdomain for your community on UseGalaxy.eu ✍️ 🧐
• Galaxy Community Building / Make your tools available on your subdomain ✍️ 🧐
• Galaxy Community Building / Creation of a Galaxy tutorial table for your community 🧐
• Galaxy Community Building / Creation of resources listing Galaxy workflow for your community 🧐
• Galaxy Community Building / Creation of resources listing all the tools and their metadata relevant to your community 🧐
• Galaxy Community Building / Creation of the labs in the different Galaxy instances for your community 🧐
• Climate / Ocean Data View (ODV) ✍️ 🧐
• Climate / Sentinel 5P data visualisation ✍️
• Climate / Getting your hands-on earth data ✍️ 🧐
• Climate / Ocean's variables study ✍️ 🧐
• Climate / Nitrate DMQC for autonomous platforms such as Argo floats ✍️ 🧐
• Climate / Analyse Argo data ✍️ 🧐
• Ecology / Life Traits Ecoregionalization workflow 🧐
• Ecology / From NDVI data with OpenEO to time series visualisation with Holoviews ✍️ 🧐
• 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 / Marine Omics identifying biosynthetic gene clusters ✍️
• 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 / QGIS Web Feature Services ✍️ 🧐
• Ecology / Phylodiversity analysis quick tutorial 🧐
• Ecology / RAD-Seq Reference-based data analysis 🧐
• Ecology / SAM3 – Segmentation sémantique d'images et de vidéos via IA 🧐
• Ecology / Production d'indicateurs champs de bloc ✍️

1 Slide

• FAIR Data, Workflows, and Research / An earth-system RO-Crate ✍️

2 FAQs

• Creating a dataset collection with autobuild
• Running a workflow

2 Events

• Galaxy Beyond Basics: Mastering Workflows, Automation, and Scalability 🎪 🧑‍🏫

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GitHub Activity

github Issues Reported

31 Merged Pull Requests

See all of the github Pull Requests and github Commits by Marie Josse.

• Add kilian
  template-and-tools
• add letter a-e in text
  faqs
• Review community tuto
• Qcv analysis update
  template-and-tools
  climate
  faqs
• Add new earth system tuto on ocean
  climate

Reviewed 21 PRs

We love our community reviewing each other's work!

• Update metadata.yaml Clean ecology topics training section
  ecology
• Create tutorial.md yolo detection marine ecology
  template-and-tools
  ecology
• Add new tutorial for SAM3
  template-and-tools
  ecology
• Add Marie Jossé to Ecology Editorial board
  template-and-tools
  ecology
• Review community tuto

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