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

• Climate / Getting your hands-on earth data ✍️ 🧐
• Climate / Sentinel 5P data visualisation ✍️
• Climate / Ocean Data View (ODV) ✍️ 🧐
• Climate / Ocean's variables study ✍️ 🧐
• Climate / Nitrate DMQC for autonomous platforms such as Argo floats ✍️ 🧐
• Climate / Analyse Argo data ✍️ 🧐
• Galaxy Community Building / Creation of resources listing Galaxy workflow for your community 🧐
• Galaxy Community Building / Creation of the labs in the different Galaxy instances for your community 🧐
• Galaxy Community Building / Creation of resources listing all the tools and their metadata relevant to your community 🧐
• Galaxy Community Building / Make your tools available on your subdomain ✍️ 🧐
• Galaxy Community Building / Creation of a Galaxy tutorial table for your community 🧐
• Galaxy Server administration / Adding file-sources to Galaxy ✍️
• Galaxy Server administration / Create a subdomain for your community on UseGalaxy.eu ✍️ 🧐
• Development in Galaxy / Galaxy Interactive Tools ✍️ 🧐
• Ecology / RAD-Seq de-novo data analysis 🧐
• Ecology / QGIS Web Feature Services ✍️ 🧐
• Ecology / Biodiversity data exploration ✍️
• Ecology / Phylodiversity analysis quick tutorial 🧐
• Ecology / Champs blocs indicators ✍️ 🧐
• Ecology / Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities 🧐
• Ecology / Species distribution modeling 🧐
• Ecology / Object detection with YOLO ⚙️ 🧐
• Ecology / Obis marine indicators ✍️ 🧐
• Ecology / RAD-Seq Reference-based data analysis 🧐
• Ecology / Life Traits Ecoregionalization workflow 🧐
• Ecology / Compute and analyze biodiversity metrics with PAMPA toolsuite 🧐
• Ecology / Data submission using ENA upload Tool 🧐
• Ecology / Regional GAM 🧐
• Ecology / Metabarcoding/eDNA through Obitools 🧐
• Ecology / SAM3 – AI-based Semantic Segmentation of marine biodiversity Images and Videos 🧐
• Ecology / Taxonomic Analysis of eDNA 🧐
• Ecology / Sentinel 2 biodiversity ✍️
• Ecology / Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS 🧐
• Ecology / Marine Omics identifying biosynthetic gene clusters ✍️
• Ecology / Ecoregionalization workflow tutorial ⚙️
• Ecology / From NDVI data with OpenEO to time series visualisation with Holoviews ✍️ 🧐
• Ecology / Visualize EBV cube data with Panoply netCDF viewer ✍️ 🧐
• Ecology / RAD-Seq to construct genetic maps 🧐
• Ecology / Cleaning GBIF data using OpenRefine 🧐
• Contributing to the Galaxy Training Material / Tools, Data, and Workflows for tutorials 🧐
• FAIR Data, Workflows, and Research / Exporting Workflow Run RO-Crates from Galaxy 📝 🧐
• Ecology / Production d'indicateurs champs de bloc ✍️
• Ecology / SAM3 – Segmentation sémantique d'images et de vidéos via IA 🧐

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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