Final output is a table of Taxa and how many sequences aligned with them. This table can be used to then visualize via a pie chart.

Associated Tutorial

This workflows is part of the tutorial Taxonomic Analysis of eDNA, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Regional GAM, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, [Yvan Le ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Regional GAM, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, [Yvan Le ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Regional GAM, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, [Yvan Le ...

Regional GAM

Associated Tutorial

This workflows is part of the tutorial Regional GAM, available in the GTN

Thanks to...

Tutorial Author(s): Clara Urfer, Elisa Michon, [Yvan Le ...

Metabarcoding/eDNA through Obitools

Associated Tutorial

This workflows is part of the tutorial Metabarcoding/eDNA through Obitools, available in the GTN

Thanks to...

Tutorial Author(s): Coline Royaux, [Olivier ...

Compute and analyze biodiversity metrics with PAMPA toolsuite

Associated Tutorial

This workflows is part of the tutorial Compute and analyze biodiversity metrics with PAMPA toolsuite, available in the GTN

Thanks to...

Tutorial Author(s): Coline Royaux, ...

Biodiversity data exploration

Associated Tutorial

This workflows is part of the tutorial Biodiversity data exploration, available in the GTN

Thanks to...

Tutorial Author(s): Olivier Norvez, Marie Josse, ...

Compute indicators for Champs blocs

Associated Tutorial

This workflows is part of the tutorial Champs blocs indicators, available in the GTN

Thanks to...

Tutorial Author(s): Marie Josse, Yvan Le Bras ...

Species distribution modeling

Associated Tutorial

This workflows is part of the tutorial Species distribution modeling, available in the GTN

Thanks to...

Tutorial Author(s): Elisa Michon, Yvan Le Bras, ...

RAD-Seq to construct genetic maps

Associated Tutorial

This workflows is part of the tutorial RAD-Seq to construct genetic maps, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

[![gtn star logo followed by the word ...

Checking expected species and contamination in bacterial isolate

Associated Tutorial

This workflows is part of the tutorial Checking expected species and contamination in bacterial isolate, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Cleaning GBIF data for the use in Ecology

Associated Tutorial

This workflows is part of the tutorial Cleaning GBIF data for the use in Ecology, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras, [Simon ...

RAD-Seq de-novo data analysis

Associated Tutorial

This workflows is part of the tutorial RAD-Seq de-novo data analysis, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

Tutorial Contributor(s): [Verena ...

RAD-Seq Reference-based data analysis

Associated Tutorial

This workflows is part of the tutorial RAD-Seq Reference-based data analysis, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

Tutorial Contributor(s): [Verena ...

RAD-Seq Reference-based data analysis

Associated Tutorial

This workflows is part of the tutorial RAD-Seq Reference-based data analysis, available in the GTN

Thanks to...

Tutorial Author(s): Yvan Le Bras

Tutorial Contributor(s): [Verena ...

This workflow begins from a set of genome assemblies of different samples, strains, species. The genome is first annotated with Funnanotate. Predicted proteins are furtner annotated with Busco. Next, 'ProteinOrtho' finds orthologs across the samples and makes orthogroups. Orthogroups where all samples are represented are extracted. Orthologs in each orthogroup are aligned with ClustalW. The alignments are cleaned with ClipKIT and the concatenation matrix is built using PhyKit. This can be used ...

Visualization of Climate Data using NetCDF Xarray Map Plotting

Associated Tutorial

This workflows is part of the tutorial Visualization of Climate Data using NetCDF xarray Map Plotting, available in the GTN

Thanks to...

Workflow Author(s): Soumya Jha

Tutorial Author(s): Soumya Jha ...

Workflow for running LotuS2 tool on fungal ITS paired-end sequencing data, to identify the fungi present in the samples

Associated Tutorial

This workflows is part of the tutorial Identifying Mycorrhizal Fungi from ITS2 sequencing using LotuS2, available in the GTN

Features

• Includes [Galaxy Workflow ...

Laserfarm (https://doi.org/10.1016/j.ecoinf.2022.101836) is a high-throughput workflow for generating geospatial data products of ecosystem structure using LiDAR point clouds from national or regional airborne laser scanning (ALS) surveys. The workflow example here shows the application of the Laserfarm workflow to the 7.5 km2 large Reserve Naturelle Nationale du Bagnas ('Bagnas') in France (3.514360 E, 43.314332 N). The work has been performed in the context of the EU project MAMBO (Modern ...

Second part of the ecoregionalization

This workflow allows you to create an ecoregionalization map from occurrences and environmental data using a boosted regression trees model for predictions.

The workflow is intended for processing occurrence data, which should include latitude, longitude and species presence or absence. You can use example test data available with the workflow, highlighting a use case centered on the Dumont d'Urville sea region and benthic invertebrates. The primary goal of ...

Part 1 of ecoregionalization workflow

This workflow allows you to create an ecoregionalization map from occurrences and environmental data using a boosted regression trees model for predictions.

The workflow is intended for processing occurrence data, which should include latitude, longitude and species presence or absence. You can use example test data available with the workflow, highlighting a use case centered on the Dumont d'Urville sea region and benthic invertebrates. The primary goal of ...

NDVI data with OpenEO to time series visualisation with HoloViz

Calculating and visualizing marine biodiversity indicators

Galaxy-E (ecology.usegalaxy.eu) workflow to calculate species presence / absence, community metrics and compute generalized linear models to identify effects and significativity of these effects on biodiversity.