Galaxy Training Network

Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biological research.

• Accessible: Users can easily run tools without writing code or using the CLI; all via a user-friendly web interface.
• Reproducible: Galaxy captures all the metadata from an analysis, making it completely reproducible.
• Transparent: Users share and publish analyses via interactive pages that can enhance analyses with user annotations.
• Scalable: Galaxy can run ...

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 ...

Associated Tutorial

This workflows is part of the tutorial Sentinel 2 biodiversity, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Marie Josse

Tutorial Author(s): [Marie ...

Subset data on the Mediterreanean see and extract and visualise the Phosphate variable

Associated Tutorial

This workflows is part of the tutorial Ocean's variables study, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy ...

Process argo data with the Pangeo Ecosystem and visualise them with Ocean Data View (ODV)

Associated Tutorial

This workflows is part of the tutorial Analyse Argo data, available in the GTN

Thanks to...

Workflow Author(s): Marie Jossé

Tutorial Author(s): Marie Josse ...

From Copernicus Sentinel 5P data to panoply visualization of volcanic activity impact to atmosphere

Associated Tutorial

This workflows is part of the tutorial Sentinel 5P data visualisation, available in the GTN

Thanks to...

Workflow Author(s): Marie Jossé

Tutorial Author(s): Marie Josse ...

Introduction to Deep Learning

Associated Tutorial

This workflows is part of the tutorial Introduction to deep learning, available in the GTN

Thanks to...

Tutorial Author(s): Anup Kumar, Alireza Khanteymoori ...

Associated Tutorial

This workflows is part of the tutorial A Docker-based interactive Jupyterlab powered by GPU for artificial intelligence in Galaxy, available in the GTN

Thanks to...

Tutorial Author(s): Anup Kumar

Tutorial Contributor(s): [Saskia ...

Associated Tutorial

This workflows is part of the tutorial Finding the muon stopping site with pymuon-suite in Galaxy, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Muon ...

The idea of this workflow is to compare annotation with two annotation tools that differ in their approach and operation.

Associated Tutorial

This workflows is part of the tutorial Comparison of two annotation tools - Helixer and Braker3, available in the GTN

Features

• Includes [Galaxy Workflow ...

Functional annotation of protein sequences

Associated Tutorial

This workflows is part of the tutorial Functional annotation of protein sequences, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): ...

Structural and functional genome annotation with Funannotate

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Funannotate, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

**Workflow ...

Masking repeats in a genome using RepeatMasker

Associated Tutorial

This workflows is part of the tutorial Masking repeats with RepeatMasker, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Anthony ...

Refining Genome Annotations with Apollo

Associated Tutorial

This workflows is part of the tutorial Refining Genome Annotations with Apollo (prokaryotes), available in the GTN

Thanks to...

Tutorial Author(s): Anthony Bretaudeau, [Helena ...

This workflow allows you to annotate a genome with Helixer and evaluate the quality of the annotation using BUSCO and Genome Annotation statistics. GFFRead is also used to predict protein sequences derived from this annotation, and BUSCO and OMArk are used to assess proteome quality.

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Helixer, available ...

Associated Tutorial

This workflows is part of the tutorial From NDVI data with OpenEO to time series visualisation with Holoviews, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Marie Jossé

**Tutorial ...

Secondary metabolite biosynthetic gene cluster (SMBGC) Annotation using Neural Networks Trained on Interpro Signatures

Associated Tutorial

This workflows is part of the tutorial Marine Omics identifying biosynthetic gene clusters, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

From Obis data to Biodiversity indicators

Associated Tutorial

This workflows is part of the tutorial Obis marine indicators, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Marie Jossé

Tutorial Author(s): ...

This workflow uses Braker3 to annotate a genome.

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Braker3, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy Workflow ...

Metatranscriptomics analysis using microbiome RNA-seq data (short)

Associated Tutorial

This workflows is part of the tutorial Metatranscriptomics analysis using microbiome RNA-seq data (short), available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Prediction of HLA binding for verified candidates

Associated Tutorial

This workflows is part of the tutorial Neoantigen 5a: Predicting HLA Binding, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

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