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Identifier Type Title Topic Level Length
GTN:N00107 News Bioinformatics Projects Pathway for Students: New insights from public data!
gtnsingle-cell
GTN:N00105 News SPOC HDR UK ELIXIR-UK CoFest 2025: How did it go?
gtnsingle-cell
GTN:N00101 News GTN's Gift for 2024
gtnsingle-cellnew featurenew tutorialcontributingcommunity
GTN:N00100 News 🖖🏾Galaxy SPOC Community: Year in Review
gtncommunicationssingle-cell
GTN:N00098 News SPOC CoFest 2024: How did it go?
gtnsingle-cell
GTN:N00094 News New Tutorial: Single-cell ATAC-seq standard processing with SnapATAC2
new tutorialsingle-cellepigenetics
GTN:N00087 News From GTN Intern to Tutorial Author to Bioinformatician
single-celltrainingeducationtrajectoryusercontributorcontributing
GTN:N00070 News FAIR Data management in single cell analysis
single-celldata managementdata importfair
GTN:N00067 News Galaxy Single-cell Community: Year in Review
gtncommunicationssingle-cell
GTN:N00060 News Single cell subdomain re-launch: Unified and feedback-driven
gtnsingle-cell
GTN:N00039 News New Tutorial Suite: Deconvolution with MuSiC, from public data to disease interrogation!
new tutorialsingle-celltranscriptomics
GTN:N00038 News New Topic: Single Cell Analysis!
new topicsingle-cellnew feature
GTN:N00009 News New Tutorial: Downstream Single-cell RNA Plant analysis with ScanPy
new tutorialsingle-cellplant
GTN:N00006 News New Tutorial: Object tracking using CellProfiler
new tutorialimaging
GTN:F00282 FAQs Do I need to create collections to run MaxQuant analysis or can I use single sample inputs?
 Proteomics
GTN:F00329 FAQs I get a different number of transcripts with a significant change in gene expression between the G1E and megakaryocyte cellular states. Why?
 Transcriptomics
TBA Slides Introduction to Synthetic Biology
 Synthetic Biology
TBA Slides Galaxy from a developer point of view
 Development in Galaxy
TBA Slides Introduction to Muon Spectroscopy
 Materials Science
GTN:F00353 FAQs Use our Single Cell Omics Lab
 Single Cell
GTN:F00374 FAQs Can this ASaiM workflow be used for single-end data?
 Microbiome
GTN:S00071 Slides Nucleoli Segmentation
&
Feature Extraction
using CellProfiler
 Imaging 4H
GTN:S00110 Slides Automated Cell Annotation
 Single Cell
GTN:S00124 Slides GO Enrichment Analysis on Single-Cell RNA-Seq Data
 Single Cell 1h
GTN:S00123 Slides Single-cell Formats and Resources
 Single Cell
TBA Slides Lorum Ipsum
testpagelanguage		 Introductory 42M
TBA Slides Introducción al análisis de datos de scRNA-seq
single-cell		 Single Cell 30m
TBA Slides Una breve introducción a Galaxy
 Introduction to Galaxy Analyses
TBA Slides Lorum Ipsum
testpagelanguage		 Introductory 42M
TBA Slides Una introducción al análisis de datos scRNA-seq
single-cell		 Single Cell Intermediate 30m
TBA Slides Una Breve Introducción a Galaxy
 Introduction to Galaxy Analyses
TBA Slides Lorum Ipsum
testpagelanguage		 Introductory 42M
TBA Slides Lorum Ipsum
testpagelanguage		 Intermediate 42M
GTN:F00330 FAQs I’m using the same training data, tools, and parameters as the tutorial, but I get a different number of transcripts with a significant change in gene expression between the G1E and megakaryocyte cellular states. Why?
 Transcriptomics
TBA Hands-on Setting up a dev Onedata instance
storage		 Development in Galaxy Introductory 20m
TBA Hands-on Preview the GTN website as you edit your training material
Choose your own AdventureGitPodCodeSpacesCommand-line		 Contributing to the Galaxy Training Material 20m
GTN:T00470 Hands-on Single Cell Publication - Data Plotting
Rrmarkdown-notebookjupyter-notebook		 Contributing to the Galaxy Training Material Advanced 1H
TBA Hands-on Contributing to the Galaxy Training Network with GitHub
 Contributing to the Galaxy Training Material 30m
GTN:T00469 Hands-on Single Cell Publication - Data Analysis
Ruby		 Contributing to the Galaxy Training Material Advanced 1H
TBA Hands-on Dataset construction for bacterial comparative genomics
microgalaxywork-in-progress		 Genome Annotation Introductory 1H
TBA Hands-on Bacterial pangenomics
 Genome Annotation Introductory 1H
GTN:T00171 Hands-on CRISPR screen analysis
genome editingCRISPRessential genescell line		 Genome Annotation 2H
TBA Hands-on Genome annotation with Braker3
eukaryotaBraker3jbrowse1		 Genome Annotation Intermediate 8h
TBA Hands-on Bacterial genome quality control
microgalaxywork-in-progress		 Genome Annotation Introductory 1H
TBA Hands-on Primer and primer scheme design for pan-specific detection and sequencing of viral pathogens across genotypes
virology		 Sequence analysis Introductory 1H
TBA Hands-on Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants
plants		 Sequence analysis 2H
TBA Hands-on Regulations/standards for AI using DOME
elixirai-mlwork-in-progressjupyter-notebook		 Statistics and machine learning Intermediate 3H
TBA Hands-on Generative Artificial Intelligence and Large Langage Model using Python
elixirai-mlwork-in-progressjupyter-notebook		 Statistics and machine learning Intermediate 3H
TBA Hands-on Foundational Aspects of Machine Learning using Python
elixirai-mlwork-in-progressjupyter-notebook		 Statistics and machine learning Intermediate 3H
TBA Hands-on Deep Learning (without Generative Artificial Intelligence) using Python
elixirai-mlwork-in-progressjupyter-notebook		 Statistics and machine learning Intermediate 3H
TBA Hands-on Text-Mining Differences in Chinese Newspaper Articles
HumanitiesText_mining		 Statistics and machine learning Introductory 1H
TBA Hands-on Neural networks using Python
elixirai-mlwork-in-progressjupyter-notebook		 Statistics and machine learning Intermediate 3H
TBA Hands-on Building the LORIS LLR6 PanCancer Model Using PyCaret
LORIS Score ModelMachine LearningPyCaret		 Statistics and machine learning Intermediate 1H
TBA Hands-on Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy
 Imaging Intermediate 1H
GTN:T00183 Hands-on Nucleoli segmentation and feature extraction using CellProfiler
 Imaging 4H
TBA Hands-on Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines
RNAsmFISHbioimaging		 Imaging Introductory 30m
GTN:T00182 Hands-on Object tracking using CellProfiler
 Imaging 1H
GTN:T00143 Hands-on Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)
ChIP-seq		 Epigenetics 3h
GTN:T00141 Hands-on Hi-C analysis of Drosophila melanogaster cells using HiCExplorer
 Epigenetics 1h
GTN:T00245 Hands-on Generating a single cell matrix using Alevin
paper-replicationMIGHTS		 Single Cell 2H
GTN:T00366 Hands-on Filter, plot, and explore single cell RNA-seq data with Seurat (R)
paper-replicationMIGHTSrmarkdown-notebookjupyter-notebook		 Single Cell 3H
GTN:T00255 Hands-on Single-cell quality control with scater
work-in-progress		 Single Cell 1H
GTN:T00249 Hands-on Inferring single cell trajectories with Monocle3
paper-replicationMIGHTS		 Single Cell 2H
GTN:T00244 Hands-on Inferring single cell trajectories with Scanpy (Python)
paper-replicationMIGHTSjupyter-notebook		 Single Cell 2H
GTN:T00358 Hands-on Filter, plot and explore single-cell RNA-seq data with Scanpy (Python)
paper-replicationMIGHTSjupyter-notebook		 Single Cell 3H
GTN:T00246 Hands-on Combining single cell datasets after pre-processing
paper-replicationMIGHTS		 Single Cell 1H
GTN:T00251 Hands-on Pre-processing of Single-Cell RNA Data
work-in-progress		 Single Cell 3h
GTN:T00252 Hands-on Pre-processing of 10X Single-Cell RNA Datasets
10x		 Single Cell 1h
GTN:T00335 Hands-on Pre-processing of 10X Single-Cell ATAC-seq Datasets
10xepigenetics		 Single Cell 1h
GTN:T00378 Hands-on Generating a single cell matrix using Alevin and combining datasets (bash + R)
10xpaper-replicationMIGHTSjupyter-notebook		 Single Cell 2H
GTN:T00247 Hands-on Filter, plot and explore single-cell RNA-seq data with Scanpy
paper-replicationMIGHTS		 Single Cell 3H
GTN:T00438 Hands-on Filter, plot, and explore single cell RNA-seq data with Seurat
paper-replicationMIGHTS		 Single Cell 3H
GTN:T00253 Hands-on Downstream Single-cell RNA analysis with RaceID
work-in-progress		 Single Cell 3H
GTN:T00456 Hands-on GO Enrichment Analysis on Single-Cell RNA-Seq Data
single cellGO enrichment		 Single Cell 3H
GTN:T00445 Hands-on Single-cell ATAC-seq standard processing with SnapATAC2
10xepigeneticssingle-cell		 Single Cell Intermediate 4H
GTN:T00248 Hands-on Removing the effects of the cell cycle
 Single Cell 1H
TBA Hands-on Clustering 3K PBMCs with Seurat
10x		 Single Cell Introductory 8H
GTN:T00241 Hands-on Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution
data management		 Single Cell 1H
GTN:T00336 Hands-on Inferring single cell trajectories with Monocle3 (R)
paper-replicationMIGHTSrmarkdown-notebookjupyter-notebook		 Single Cell 3H
TBA Hands-on Evaluating Reference Data for Bulk RNA Deconvolution
transcriptomics		 Single Cell 2H
GTN:T00418 Hands-on Converting between common single cell data formats
data managementdata import		 Single Cell 1H
TBA Hands-on Pseudobulk Analysis with Decoupler and EdgeR
transcriptomicspseudobulk		 Single Cell 3H
TBA Hands-on Multi-sample batch correction with Harmony and SnapATAC2
10xepigenetics		 Single Cell Intermediate 4H
GTN:T00379 Hands-on Inferring single cell trajectories with Scanpy
paper-replicationMIGHTS		 Single Cell 3H
GTN:T00243 Hands-on Comparing inferred cell compositions using MuSiC deconvolution
transcriptomics		 Single Cell 1H
TBA Hands-on Importing (uploading) data from Onedata
storage		 Using Galaxy and Managing your Data Introductory 15m
TBA Hands-on Exporting to Onedata remote
storage		 Using Galaxy and Managing your Data Introductory 5m
TBA Hands-on Getting started with Onedata distributed storage
storage		 Using Galaxy and Managing your Data Introductory 20m
TBA Hands-on Onedata user-owned storage
storage		 Using Galaxy and Managing your Data Introductory 15m
TBA Hands-on Neoantigen 5: Variant Annotation
label-free		 Proteomics 3H
TBA Hands-on Neoantigen 1: Fusion-Database-Generation
label-free		 Proteomics 2H
TBA Hands-on Single Cell Proteomics data analysis with bioconductor-scp
 Proteomics 3H
TBA Hands-on Neoantigen 6: Predicting HLA Binding
label-free		 Proteomics 3H
TBA Hands-on Neoantigen 3: Database merge and FragPipe discovery
label-free		 Proteomics 3H
TBA Hands-on Neoantigen 4: PepQuery2 Verification
label-free		 Proteomics 3H
TBA Hands-on Neoantigen 7: IEDB binding PepQuery Validated Neopeptides
label-free		 Proteomics 3H
TBA Hands-on Neoantigen 2: Non-Reference-Database-Generation
label-free		 Proteomics 3H
TBA Hands-on Multiomics data analysis using MultiGSEA
multi-omicstranscriptomicsproteomicsmetabolomics		 Proteomics 1H
TBA Hands-on Phylogenetic analysis for bacterial comparative genomics
microgalaxywork-in-progress		 Evolution Introductory 1H
TBA Hands-on Configuring the Onedata connectors (remotes, Object Store, BYOS, BYOD)
storage		 Galaxy Server administration Intermediate 40m
TBA Hands-on Galaxy usage on SURF Research Cloud
deploying		 Galaxy Server administration Introductory 30m
TBA Hands-on Adding file-sources to Galaxy
earth-systemoceandatawork-in-progress		 Galaxy Server administration 15m
TBA Hands-on Pulsar usage on SURF Research Cloud
deploying		 Galaxy Server administration Introductory 30m
TBA Hands-on Query an annotated mobile genetic element database to identify and annotate genetic elements (e.g. plasmids) in metagenomics data
 Microbiome Introductory 1H
GTN:T00477 Hands-on Deciphering Virus Populations - Single Nucleotide Variants (SNVs) and Specificities in Baculovirus Isolates
 Variant Analysis Intermediate 3H
TBA Hands-on Creating community content
 Galaxy Community Building 30M
TBA Hands-on Cleaning GBIF data using OpenRefine
 Ecology 0h45m
TBA Hands-on Data submission using ENA upload Tool
 Ecology 2h
TBA Hands-on Python - Warm-up for statistics and machine learning
elixirai-mlwork-in-progressjupyter-notebook		 Foundations of Data Science Introductory 1H
TBA Hands-on Generación de una matriz de datos de secuenciación de ARN de células únicas utilizando Alevin
single-cell10xpaper-replicationtranscriptomics		 Single Cell Advanced 3H
TBA Hands-on Generación de una matriz de datos de secuenciación de ARN de células únicas utilizando Alevin
single-cell10xpaper-replicationtranscriptomics		 Single Cell Advanced 3H
TBA Hands-on Filtrado, representación y exploración de secuenciación de ARN de células únicas
single-cell10xpaper-replicationinteractive-toolstranscriptomics		 Single Cell Advanced 3H
TBA Hands-on Breve introducción a Galaxy - en español
 Introduction to Galaxy Analyses Introductory 30m
TBA Hands-on Production d'indicateurs champs de bloc
 Ecology 1H
GTN:W00245 Workflow QC + Mapping + Counting (single+paired) - Ref Based RNA Seq - Transcriptomics - GTN
 Transcriptomics
GTN:W00071 Workflow Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)
 Epigenetics
GTN:W00194 Workflow Generating a single cell matrix using Alevin
 Single Cell
GTN:W00213 Workflow Single-cell QC with scater
 Single Cell
GTN:W00209 Workflow CelSeq2: Single Batch (mm10)
 Single Cell
GTN:W00293 Workflow CS3_Filter, Plot and Explore Single-cell RNA-seq Data
 Single Cell
GTN:W00197 Workflow Filter, Plot and Explore Single-cell RNA-seq Data updated
 Single Cell
GTN:W00312 Workflow Music: Pre-grouping cell types
 Single Cell
GTN:W00274 Workflow Workflow - Standard processing of 10X single cell ATAC-seq data with SnapATAC2
 Single Cell
GTN:W00198 Workflow Cell Cycle Regression Workflow
 Single Cell
GTN:W00308 Workflow Music Stage 2 - Inferring cellular proportions
 Single Cell
GTN:W00203 Workflow AnnData to Cell Data Set (CDS) conversion
 Single Cell
GTN:W00205 Workflow AnnData to SingleCellExperiment (SCE) conversion
 Single Cell
GTN:W00313 Workflow Differential gene expression for single-cell data using pseudo-bulk counts with edgeR
 Single Cell
TBA Workflow Metagenomics assembly tutorial workflow
 Assembly
TBA Workflow workflow-generate-dataset-for-assembly-tutorial
 Assembly
TBA Workflow WF2_Discovery-Workflow
 Microbiome
TBA Workflow WF3_VERIFICATION_WORKFLOW
 Microbiome
TBA Workflow WF4_Quantitation_Workflow
 Microbiome
TBA Workflow WF1_Database_Generation_Workflow
 Microbiome
TBA Workflow WF5_Data_Interpretation_Worklow
 Microbiome
TBA Workflow Data management in Medicinal Chemistry workflow
 FAIR Data, Workflows, and Research
TBA Workflow GTN Tutorial: Data manipulation Olympics - all steps and exercises
 Foundations of Data Science