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Identifier Type Title Topic Level Length
GTN: News Giessen joins the Galaxy Training Academy 2025 with on site support
gtntrainingcontributing
GTN:N00084 News Celebrating the Milestone: 400 Tutorials on the Galaxy Training Network!
gtncontributingcommunity
GTN:N00083 News Integrating the Galaxy Training Network into the Tool Form
gtnnew featurealready-on-hubcontributing
GTN:N00070 News FAIR Data management in single cell analysis
single-celldata managementdata importfair
GTN:N00053 News New Galaxy training: Genome-wide alternative splicing analysis
new tutorialtranscriptomics
GTN:N00038 News New Topic: Single Cell Analysis!
new topicsingle-cellnew feature
GTN:N00019 News New Tutorial: Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
new tutorialvariant-analysiscovid-19one-health
GTN:N00011 News New Tutorials: Whole transcriptome analysis of Arabidopsis thaliana
new tutorialtranscriptomicsplantsmirna
GTN:N00009 News New Tutorial: Downstream Single-cell RNA Plant analysis with ScanPy
new tutorialsingle-cellplant
GTN:F00282 FAQs Do I need to create collections to run MaxQuant analysis or can I use single sample inputs?
 Proteomics
GTN:F00008 FAQs Extended Help for Differential Expression Analysis Tools
 Galaxy FAQ
GTN:F00362 FAQs How can I do analysis X? - Getting help
 Galaxy FAQ
GTN:F00278 FAQs What is the principle of an enrichment analysis?
 Proteomics
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:F00378 FAQs Where can I read more about this analysis?
 Microbiome
GTN:F00381 FAQs Where can I read more about this analysis?
 Microbiome
GTN:F00223 FAQs Additional resources to learn more about proteomic data analysis
 Proteomics
GTN:S00096 Slides Network Analysis with Heinz
 Transcriptomics
GTN:S00095 Slides Whole transcriptome analysis of Arabidopsis thaliana
 Transcriptomics
GTN:S00089 Slides Feedforward neural networks (FNN) Deep Learning - Part 1
 Statistics and machine learning
TBA Slides Building Reliable Machine Learning Models with PyCaret: A Case Study on the LORIS Model
 Statistics and machine learning
GTN:S00088 Slides Convolutional neural networks (CNN) Deep Learning - Part 3
 Statistics and machine learning
GTN:S00090 Slides Recurrent neural networks (RNN) Deep Learning - Part 2
 Statistics and machine learning
GTN:S00133 Slides Neural networks using Python
elixirai-ml		 Statistics and machine learning
GTN:S00105 Slides BioImage Model Zoo: Advanced models in one-click
bioimageioimage analysis		 Image analysis using Deep Learning 5m
GTN:S00107 Slides Contribute to the BioImage.IO models
bioimageioimage analysis		 Image analysis using Deep Learning 10m
GTN:S00106 Slides Welcome to the BioImage Model Zoo
bioimageioimage analysis		 Image analysis using Deep Learning 5m
GTN:S00056 Slides Introduction to ATAC-Seq data analysis
 Epigenetics 30m
GTN:S00060 Slides Introduction to DNA Methylation data analysis
 Epigenetics
GTN:S00059 Slides Introduction to ChIP-Seq data analysis
 Epigenetics
GTN:S00058 Slides ChIP-seq data analysis
 Epigenetics 15M
GTN:S00067 Slides Introduction to CRISPR screen analysis
 Genome Annotation 5m
GTN:S00119 Slides Phylogenetics - Back to Basics - Phylogenetic Networks
 Evolution
GTN:S00114 Slides Introduction to Microbiome Analysis
 Microbiome
GTN:S00099 Slides Introduction to Variant analysis
 Variant Analysis
GTN:S00111 Slides Trajectory analysis
 Single Cell
GTN:S00124 Slides GO Enrichment Analysis on Single-Cell RNA-Seq Data
 Single Cell 1h
GTN:S00084 Slides An introduction to scRNA-seq data analysis
 Single Cell Intermediate 30m
TBA Slides Lorum Ipsum
testpagelanguage		 Introductory 42M
TBA Slides Una breve introducción a Galaxy
 Introduction to Galaxy Analyses
TBA Slides Introducción al análisis de datos de scRNA-seq
single-cell		 Single Cell 30m
TBA Slides Lorum Ipsum
testpagelanguage		 Introductory 42M
TBA Slides Una Breve Introducción a Galaxy
 Introduction to Galaxy Analyses
TBA Slides Una introducción al análisis de datos scRNA-seq
single-cell		 Single Cell Intermediate 30m
TBA Slides Lorum Ipsum
testpagelanguage		 Introductory 42M
TBA Slides Lorum Ipsum
testpagelanguage		 Intermediate 42M
GTN:T00050 Hands-on High Throughput Molecular Dynamics and Analysis
 Computational chemistry Advanced 3H
GTN:T00047 Hands-on Analysis of molecular dynamics simulations
 Computational chemistry Intermediate 1H
GTN:T00511 Hands-on Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants
plants		 Sequence analysis 2H
GTN:T00297 Hands-on RNA-Seq analysis with AskOmics Interactive Tool
 Transcriptomics 2H
GTN:T00437 Hands-on Pathway analysis with the MINERVA Platform
bulkrna-seqvizcyoa		 Transcriptomics Intermediate 1h
GTN:T00291 Hands-on GO Enrichment Analysis
 Transcriptomics 1h
GTN:T00293 Hands-on Network analysis with Heinz
metatranscriptomicsnetwork analysis		 Transcriptomics 1h30m
GTN:T00294 Hands-on Reference-based RNAseq data analysis (long)
 Transcriptomics 1h
GTN:T00345 Hands-on Genome-wide alternative splicing analysis
alternative splicingisoform switching		 Transcriptomics Advanced 3H
GTN:T00292 Hands-on Whole transcriptome analysis of Arabidopsis thaliana
miRNAplantsstress tolerance		 Transcriptomics 2H
GTN:T00296 Hands-on RNA-RNA interactome data analysis
 Transcriptomics 2H
GTN:T00290 Hands-on De novo transcriptome assembly, annotation, and differential expression analysis
 Transcriptomics 3H
GTN:T00288 Hands-on CLIP-Seq data analysis from pre-processing to motif detection
 Transcriptomics 6h
GTN:T00295 Hands-on Reference-based RNA-Seq data analysis
bulkrna-seqcollectionsdrosophilaQCcyoa		 Transcriptomics Introductory 8h
GTN:T00260 Hands-on PAPAA PI3K_OG: PanCancer Aberrant Pathway Activity Analysis
Machine learningPan-cancercancer biomarkersoncogenes and tumor suppressor genes		 Statistics and machine learning 1H30M
GTN:T00258 Hands-on Deep Learning (Part 1) - Feedforward neural networks (FNN)
 Statistics and machine learning 2H
GTN:T00257 Hands-on Deep Learning (Part 3) - Convolutional neural networks (CNN)
 Statistics and machine learning 2H
GTN:T00259 Hands-on Deep Learning (Part 2) - Recurrent neural networks (RNN)
 Statistics and machine learning 2H
GTN:T00526 Hands-on Neural networks using Python
elixirai-mlwork-in-progressjupyter-notebook		 Statistics and machine learning Intermediate 3H
GTN:T00483 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
GTN:T00194 Hands-on Mass spectrometry : GC-MS analysis with metaMS package
 Metabolomics Introductory 2H
GTN:T00195 Hands-on Mass spectrometry: LC-MS analysis
 Metabolomics 3h
GTN:T00137 Hands-on ATAC-Seq data analysis
 Epigenetics 3h
GTN:T00424 Hands-on CUT&RUN data analysis
 Epigenetics 3h
GTN:T00141 Hands-on Hi-C analysis of Drosophila melanogaster cells using HiCExplorer
 Epigenetics 1h
GTN:T00142 Hands-on DNA Methylation data analysis
 Epigenetics 3h
GTN:T00181 Hands-on Introduction to Image Analysis using Galaxy
HeLa		 Imaging Introductory 1H
TBA Hands-on Parameter tuning and optimization - Evaluating nuclei segmentation with Galaxy
bioimaging		 Imaging Introductory 1H
GTN:T00334 Hands-on End-to-End Tissue Microarray Image Analysis with Galaxy-ME
 Imaging 3H
GTN:T00500 Hands-on Using BioImage.IO models for image analysis in Galaxy
bioimagingAI		 Imaging 30M
GTN:T00171 Hands-on CRISPR screen analysis
genome editingCRISPRessential genescell line		 Genome Annotation 2H
GTN:T00174 Hands-on Comparative gene analysis in unannotated genomes
evolutionannotationvgpcookbookeukaryoteprokaryotemicrogalaxy		 Genome Annotation 30M
GTN:T00502 Hands-on Single Cell Proteomics data analysis with bioconductor-scp
 Proteomics 3H
GTN:T00233 Hands-on Proteogenomics 3: Novel peptide analysis
proteogenomics		 Proteomics Intermediate 30m
GTN:T00210 Hands-on Statistical analysis of DIA data
DIA		 Proteomics Intermediate 1H
GTN:T00220 Hands-on MaxQuant and MSstats for the analysis of TMT data
DDATMT		 Proteomics 3H
GTN:T00503 Hands-on Multiomics data analysis using MultiGSEA
multi-omicstranscriptomicsproteomicsmetabolomics		 Proteomics 1H
GTN:T00227 Hands-on Peptide Library Data Analysis
 Proteomics Intermediate 20m
GTN:T00218 Hands-on Label-free data analysis using MaxQuant
DDAlabel-free		 Proteomics Introductory 1H
GTN:T00219 Hands-on MaxQuant and MSstats for the analysis of label-free data
label-free		 Proteomics Intermediate 2H
GTN:T00212 Hands-on Library Generation for DIA Analysis
DIA		 Proteomics Intermediate 1H
GTN:T00211 Hands-on DIA Analysis using OpenSwathWorkflow
DIA		 Proteomics Intermediate 2H
GTN:T00155 Hands-on SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
ncbicovid19		 Using Galaxy and Managing your Data 30m
GTN:T00162 Hands-on Automating Galaxy workflows using the command line
workflowsvariant-analysiscovid19		 Using Galaxy and Managing your Data 2h
GTN:T00489 Hands-on Phylogenetic analysis for bacterial comparative genomics
microgalaxywork-in-progress		 Evolution Introductory 1H
GTN:T00026 Hands-on Deploying Wireguard for private mesh networking
wireguardnetworking		 Galaxy Server administration 60m
GTN:T00027 Hands-on Deploying Tailscale/Headscale for private mesh networking
wireguardnetworking		 Galaxy Server administration 60m
GTN:T00389 Hands-on Metatranscriptomics analysis using microbiome RNA-seq data (short)
metatranscriptomicsmicrogalaxy		 Microbiome Introductory 3H
GTN:T00388 Hands-on Metatranscriptomics analysis using microbiome RNA-seq data
metatranscriptomicsmicrogalaxy		 Microbiome Introductory 5H
GTN:T00390 Hands-on 16S Microbial Analysis with mothur (extended)
metabarcoding16Smicrogalaxy		 Microbiome 6h
GTN:T00392 Hands-on 16S Microbial analysis with Nanopore data
metabarcoding16Snanoporemicrogalaxyplants		 Microbiome 2H
GTN:T00391 Hands-on 16S Microbial Analysis with mothur (short)
metabarcoding16Smicrogalaxy		 Microbiome 2h
GTN:T00393 Hands-on Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition
microgalaxyNanopore data analysisPathogens detectionPhylogenetic treeHeatmapcyoa		 Microbiome Introductory 4h
GTN:T00315 Hands-on From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis
covid19virologyone-health		 Variant Analysis 1H
GTN:T00308 Hands-on Avian influenza viral strain analysis from gene segment sequencing data
virologyone-health		 Variant Analysis Intermediate 4H
GTN:T00319 Hands-on M. tuberculosis Variant Analysis
prokaryoteone-healthmicrogalaxytuberculosis		 Variant Analysis Intermediate 2h
GTN:T00320 Hands-on Trio Analysis using Synthetic Datasets from RD-Connect GPAP
cyoa		 Variant Analysis Advanced 2H
GTN:T00347 Hands-on Pox virus genome analysis from tiled-amplicon sequencing data
virologyone-health		 Variant Analysis Advanced 4H
GTN:T00311 Hands-on Exome sequencing data analysis for diagnosing a genetic disease
 Variant Analysis 5h
GTN:T00514 Hands-on Pseudobulk Analysis with Decoupler and EdgeR
transcriptomicspseudobulk		 Single Cell 4H
GTN:T00250 Hands-on Analysis of plant scRNA-Seq Data with Scanpy
plantspaper-replication		 Single Cell 2H
GTN:T00456 Hands-on GO Enrichment Analysis on Single-Cell RNA-Seq Data
single cellGO enrichment		 Single Cell 3H
GTN:T00253 Hands-on Downstream Single-cell RNA analysis with RaceID
work-in-progress		 Single Cell 3H
GTN:T00128 Hands-on RAD-Seq de-novo data analysis
RAD-seqGenetic composition EBV classSpecies populations EBV classEBV datasetEBV workflow		 Ecology 8h
GTN:T00133 Hands-on RAD-Seq Reference-based data analysis
RAD-seqGenetic composition EBV classSpecies population EBV classEBV datasetEBV workflow		 Ecology 8h
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:F00388 FAQs Can we use snippy pipeline instead for the phylogenetic analysis?
 Microbiome
GTN:W00148 Workflow DIA_analysis_MSstats
 Proteomics
GTN:W00149 Workflow DIA_analysis_MSstats
 Proteomics
GTN:W00033 Workflow Workflow constructed from history 'Hsp90-MDAnalysis'
 Computational chemistry
GTN:W00029 Workflow Analysis using MDAnalysis
 Computational chemistry
GTN:W00030 Workflow Simple Analysis
 Computational chemistry
GTN:W00323 Workflow Identification and Evolutionary Analysis of Transcription-Associated Proteins
 Sequence analysis
GTN:W00240 Workflow mRNA-Seq BY-COVID Pipeline: Analysis
 Transcriptomics
GTN:W00247 Workflow RNA-RNA interactome data analysis - chira v1.4.3
 Transcriptomics
GTN:W00103 Workflow Workflow constructed from Tutorial 'Introduction to Image Analysis using Galaxy'
 Imaging
TBA Workflow Segmentation_Values_Testing
 Imaging
GTN:W00094 Workflow Comparative gene analysis
 Genome Annotation
TBA Workflow Data management in Medicinal Chemistry workflow
 FAIR Data, Workflows, and Research
TBA Workflow Metagenomics assembly tutorial workflow
 Assembly
TBA Workflow workflow-generate-dataset-for-assembly-tutorial
 Assembly
GTN:W00232 Workflow Pathway Analysis
 Synthetic Biology
GTN:W00174 Workflow GTN Proteogemics3 Novel Peptide Analysis
 Proteomics
GTN:W00166 Workflow Copy of PeptideDataAnalysis (imported from uploaded file)
 Proteomics
GTN:W00150 Workflow DIA_Analysis_OSW
 Proteomics
TBA Workflow GTN Tutorial: Data manipulation Olympics - all steps and exercises
 Foundations of Data Science
GTN:W00127 Workflow Main Metatranscriptomics Analysis
 Microbiome
TBA Workflow WF4_Quantitation_Workflow
 Microbiome
TBA Workflow WF2_Discovery-Workflow
 Microbiome
TBA Workflow WF1_Database_Generation_Workflow
 Microbiome
GTN:W00140 Workflow Training: 16S rRNA Analysis with Nanopore Sequencing Reads
 Microbiome
TBA Workflow WF5_Data_Interpretation_Worklow
 Microbiome
TBA Workflow WF3_VERIFICATION_WORKFLOW
 Microbiome
GTN:W00133 Workflow Workflow 1: Quality Control [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00134 Workflow Workflow 2: Data Cleaning And Chimera Removal [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00135 Workflow Workflow 3: Classification [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00136 Workflow Workflow 4: Mock OTU Clustering [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00137 Workflow Workflow 5: OTU Clustering [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00138 Workflow Workflow 6: Alpha Diversity [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00139 Workflow Workflow7: Beta Diversity [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00269 Workflow TB Variant Analysis v1.0
 Variant Analysis
GTN:W00270 Workflow Trio Analysis Tutorial
 Variant Analysis
GTN:W00201 Workflow Trajectory analysis using Monocle3 - full tutorial workflow
 Single Cell
GTN:W00207 Workflow scRNA Plant Analysis
 Single Cell
GTN:W00294 Workflow scRNA Plant Analysis
 Single Cell