Ecology — Editorial Board Home

This is a new, experimental "Editorial Board Home" for a given topic. It is intended to provide a single place for maintainers and editorial board members to find out key information about their topic and identify action items.

Editorial Board

orcid logoYvan Le Bras avatar Yvan Le Bras

Action Items

Item Status Why you should do this
Summary Done ✅ Provide a sufficiently detailed summary of the topic to let learners know what they're learning about in this topic.
Sufficient Editorial Board Members More required ❌ Having multiple people sharing the burden of being responsible for a specific topic can reduce board member burn-out in the long term.
Enable Subtopics Done ✅ Subtopics help organize the content and make it easier to navigate.
Annotate Funders Done ✅ (8 funders) By annotating the funders of your topic's materials, you make it easier to write your grant reports later
Learning Pathway CTA Pending ❌ By providing a Learning Pathway CTA, we can help guide learners to the best resources for learning about this topic.

Topic Materials

Material Contributions v2 Pre-requisites Follow up trainings Data on Zenodo Notebook Server Compatibility
Cleaning GBIF data using OpenRefine ✅ ❌
Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS ✅ ✅
Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities ✅ ✅
Data submission using ENA upload Tool ✅ ✅
QGIS Web Feature Services ✅ ✅
Biodiversity data exploration ✅ ✅
Checking expected species and contamination in bacterial isolate ✅ ✅
Cleaning GBIF data for the use in Ecology ✅ ❌
Champs blocs indicators ✅ ✅
Compute and analyze biodiversity metrics with PAMPA toolsuite ✅ ✅
Ecoregionalization workflow tutorial ✅ ✅
From NDVI data with OpenEO to time series visualisation with Holoviews ✅ ✅
Marine Omics identifying biosynthetic gene clusters ✅ ❌
Metabarcoding/eDNA through Obitools ✅ ✅
Obis marine indicators ✅ ✅
Preparing genomic data for phylogeny reconstruction ❌ ✅ ✅
RAD-Seq Reference-based data analysis ✅ ✅
RAD-Seq de-novo data analysis ✅ ✅
RAD-Seq to construct genetic maps ❌ ✅
Regional GAM ❌ ✅
Sentinel 2 biodiversity ✅ ❌
Species distribution modeling ❌ ✅
Visualization of Climate Data using NetCDF xarray Map Plotting ❌ ✅ ✅
Visualize EBV cube data with Panoply netCDF viewer ✅ ✅

Topic Workflows

Material Workflow Updated Version Tests Reports Comments
Biodiversity data exploration Workflow 'Biodiversity data exploration tuto' Mar 31, 2025 1 ❌ ❌ ❌
Checking expected species and contamination in bacterial isolate Checking expected species and contamination in bacterial isolate Mar 31, 2025 2 ✅ ❌ ❌
Cleaning GBIF data for the use in Ecology GBIF data Quality check and filtering workflow Feb-2020 Mar 31, 2025 1 ❌ ❌ ❌
Champs blocs indicators Champs blocs indicators Mar 31, 2025 1 ❌ ❌ ❌
Compute and analyze biodiversity metrics with PAMPA toolsuite Compute and analyze biodiversity metrics with PAMPA toolsuite Mar 31, 2025 1 ❌ ❌ ❌
Ecoregionalization workflow tutorial Ecoregionalization workflow Mar 31, 2025 1 ✅ ❌ ✅
From NDVI data with OpenEO to time series visualisation with Holoviews NDVI with OpenEO Mar 31, 2025 1 ✅ ❌ ❌
From NDVI data with OpenEO to time series visualisation with Holoviews NDVI with OpenEO Mar 31, 2025 1 ❌ ❌ ❌
Marine Omics identifying biosynthetic gene clusters Marine Omics identifying biosynthetic gene clusters Mar 31, 2025 1 ✅ ✅ ✅
Metabarcoding/eDNA through Obitools Workflow constructed from history 'Tuto Obitools' Mar 31, 2025 1 ❌ ❌ ❌
Obis marine indicators Marine Omics visualisation Mar 31, 2025 2 ✅ ❌ ❌
Preparing genomic data for phylogeny reconstruction preparing genomic data for phylogeny recostruction (GTN) Mar 31, 2025 1 ❌ ❌ ❌
RAD-Seq Reference-based data analysis Workflow Constructed From History 'STACKS RAD: Population Genomics With Reference Genome' Mar 31, 2025 3 ❌ ❌ ❌
RAD-Seq Reference-based data analysis Ref Based Rad Seq Mar 31, 2025 3 ❌ ❌ ❌
RAD-Seq de-novo data analysis de novo Rad Seq Mar 31, 2025 3 ❌ ❌ ❌
RAD-Seq to construct genetic maps Genetic Map Rad Seq Workflow Mar 31, 2025 3 ❌ ❌ ❌
Regional GAM Abundance Index "stacked" Visualization Creation Mar 31, 2025 4 ❌ ❌ ❌
Regional GAM Phenology "stacked" Visualization Creation Mar 31, 2025 4 ❌ ❌ ❌
Regional GAM Tutorial regionalGAM Complete Multispecies Mar 31, 2025 4 ❌ ❌ ❌
Regional GAM Regional GAM Workflow Mar 31, 2025 5 ❌ ❌ ❌
Sentinel 2 biodiversity Sentinel 2 example Mar 31, 2025 1 ✅ ❌ ❌
Species distribution modeling Species Distribution Modeling With Wallace From GBIF - Training Material Mar 31, 2025 4 ❌ ❌ ❌
Visualization of Climate Data using NetCDF xarray Map Plotting Xarray_Map_Plotting_Workflow Mar 31, 2025 1 ❌ ❌ ❌

Your topic's Workflow Testing Results

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Learning Pathways using materials from this Topic

Drawing of an Ecological System
Introduction to Galaxy and Ecological data analysis

This learning path aims to teach you the basics of Galaxy and analysis of ecological data. You will learn how to use Galaxy for analysis, and will be guided through the common steps of biodiversity data analysis: download, check, filter and explore biodiversity data and analyze abundance data through modeling.

beginner ecology
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Events using materials from this Topic

TODO once this is merged: https://github.com/galaxyproject/training-material/pull/4963

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