GTN Materials Search

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Identifier Type Title Topic Level Length
GTN:N00109 News Galaxy meets Onedata — distributed storage for science
esg-wp4esgcontributing
GTN:N00107 News Bioinformatics Projects Pathway for Students: New insights from public data!
gtnsingle-cell
GTN:N00085 News New Galaxy training: Building an amplicon sequence variant (ASV) table from 16S data using DADA2
new tutorialmicrobiome
GTN:N00081 News All GTN training data are now automatically mirrored via Onedata
esg-wp4esgcontributing
GTN:N00075 News New Learning Pathway for FAIR Data Management developed by ELIXIR-UK Data Stewardship Fellows and Experts
fairdmpdata stewardshipdata managementnew learning pathway
GTN:N00070 News FAIR Data management in single cell analysis
single-celldata managementdata importfair
GTN:N00056 News ELIXIR-UK Fellow Launches New FAIR Data Management Training
new topicnew tutorialfair
GTN:N00052 News BY-COVID and RO-Crate collaboration brings new topic: FAIR Data, Workflows & More
new topicnew featurefair
GTN:N00043 News New Tutorial: Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition
new tutorialmicrobiome
GTN:N00039 News New Tutorial Suite: Deconvolution with MuSiC, from public data to disease interrogation!
new tutorialsingle-celltranscriptomics
GTN:N00037 News New Tutorial: Data Manipulation
new tutorialintroduction
GTN:N00035 News GTN Metadata Schemas
new featurecontributing
GTN:N00029 News New Tutorials: PacBio data QC and Genome Assembly, and Genome Annotation with Funannotate
new tutorialassemblygenome-annotation
GTN:N00024 News New Topic: Data Science Survival Kit
gtn infrastructurenew topicdata-science
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:F00004 FAQs How can I reduce quota usage while still retaining prior work (data, tools, methods)?
 Galaxy FAQ
GTN:F00379 FAQs How can I adapt this tutorial to my own data?
 Microbiome
GTN:F00376 FAQs How can I adapt this tutorial to my own data?
 Microbiome
GTN:F00006 FAQs Adding a custom database/build (dbkey)
 Galaxy FAQ
GTN:F00216 FAQs I can’t find the “Analyze Data” button
 Introduction to Galaxy Analyses
GTN:F00325 FAQs AnnData Import/ AnnData Manipulate not working?
 Single Cell
GTN:F00277 FAQs The Build tissue-specific expression dataset tool (step one) exits with an error code.
 Proteomics
GTN:F00427 FAQs Can I use a public Galaxy for my private data?
 Galaxy FAQ
GTN:F00017 FAQs Creating a dataset collection
 Galaxy FAQ
GTN:F00182 FAQs Changing the datatype of a collection
 Galaxy FAQ
GTN:F00183 FAQs Converting the datatype of a collection
 Galaxy FAQ
GTN:F00298 FAQs I have FASTQ files from metagenomics or metatranscriptomics datasets? How can I convert them into a protein FASTA file for metaproteomics searches?
 Proteomics
GTN:F00391 FAQs Using data source tools with Pulsar
 Galaxy Server administration
GTN:F00195 FAQs Database Issues
 Galaxy Server administration
GTN:F00020 FAQs Incomplete Dataset Download
 Galaxy FAQ
GTN:F00021 FAQs How to find and correct tool errors related to Metadata?
 Galaxy FAQ
GTN:F00365 FAQs Upload fasta datasets via links
 Assembly
GTN:F00366 FAQs Upload fastqsanger datasets via links
 Assembly
GTN:F00023 FAQs Finding BAM dataset identifiers
 Galaxy FAQ
GTN:F00026 FAQs Changing the datatype
 Galaxy FAQ
GTN:F00027 FAQs Changing database/build (dbkey)
 Galaxy FAQ
GTN:F00031 FAQs How to set Data Privacy Features?
 Galaxy FAQ
GTN:F00403 FAQs How to delete datasets?
 Galaxy FAQ
GTN:F00032 FAQs Detecting the datatype (file format)
 Galaxy FAQ
GTN:F00033 FAQs Downloading datasets
 Galaxy FAQ
GTN:F00034 FAQs Downloading datasets using command line
 Galaxy FAQ
GTN:F00035 FAQs Finding Datasets
 Galaxy FAQ
GTN:F00036 FAQs How to hide datasets?
 Galaxy FAQ
GTN:F00037 FAQs Different dataset icons and their usage
 Galaxy FAQ
GTN:F00038 FAQs Importing data from a data library
 Galaxy FAQ
GTN:F00039 FAQs Importing data from remote files
 Galaxy FAQ
GTN:F00129 FAQs Importación por medio de enlaces
 Galaxy FAQ
GTN:F00040 FAQs Importing via links
 Galaxy FAQ
GTN:F00178 FAQs Importer via un lien
 Galaxy FAQ
GTN:F00042 FAQs Moving datasets between Galaxy servers
 Galaxy FAQ
GTN:F00404 FAQs Manipulating multiple history datasets
 Galaxy FAQ
GTN:F00043 FAQs Datasets not downloading at all
 Galaxy FAQ
GTN:F00044 FAQs Purging datasets
 Galaxy FAQ
GTN:F00045 FAQs Quotas for datasets and histories
 Galaxy FAQ
GTN:F00046 FAQs Renaming a dataset
 Galaxy FAQ
GTN:F00405 FAQs How to un-delete datasets?
 Galaxy FAQ
GTN:F00406 FAQs How to un-hide datasets?
 Galaxy FAQ
GTN:F00363 FAQs Upload datasets from GenomeArk
 Galaxy FAQ
GTN:F00049 FAQs Working with deleted datasets
 Galaxy FAQ
GTN:F00050 FAQs Working with very large fasta datasets
 Galaxy FAQ
GTN:F00051 FAQs Working with very large fastq datasets
 Galaxy FAQ
GTN:F00053 FAQs Using compressed fastq data as tool inputs
 Galaxy FAQ
GTN:F00054 FAQs Best practices for loading fastq data into Galaxy
 Galaxy FAQ
GTN:F00055 FAQs How do `fastq.gz` datasets relate to the `.fastqsanger` datatype metadata assignment?
 Galaxy FAQ
GTN:F00057 FAQs How to format fastq data for tools that require .fastqsanger format?
 Galaxy FAQ
GTN:F00059 FAQs Identifying and formatting Tabular Datasets
 Galaxy FAQ
GTN:F00060 FAQs Understanding Datatypes
 Galaxy FAQ
GTN:F00061 FAQs How can I upload data using EBI-SRA?
 Galaxy FAQ
GTN:F00062 FAQs Data retrieval with “NCBI SRA Tools” (fastq-dump)
 Galaxy FAQ
GTN:F00063 FAQs NCBI SRA sourced fastq data
 Galaxy FAQ
GTN:F00299 FAQs What software tools are available to determine taxonomic composition from mass spectrometry data?
 Proteomics
GTN:F00226 FAQs Why do we do dimension reduction and then clustering? Why not just cluster on the actual data?
 Single Cell
GTN:F00064 FAQs Using the Window Manager to view multiple datasets
 Galaxy FAQ
GTN:F00217 FAQs UCSC - I fetched data from a remote website but now I’m logged out of Galaxy and my data is gone?
 Introduction to Galaxy Analyses
GTN:F00215 FAQs Flatten a list of list of paired datasets into a list of paired datasets
 Using Galaxy and Managing your Data
GTN:F00248 FAQs What file/data formats are defined for I/O in Galaxy?
 Development in Galaxy
GTN:F00300 FAQs Why do we do dimension reduction and then clustering? Why not just cluster on the actual data?
 Proteomics
GTN:F00317 FAQs Where can I read more about Quality Control of data?
 Sequence analysis
GTN:F00152 FAQs How can I load data?
 GTN FAQ
GTN:F00160 FAQs Sustainability of the training-material and metadata
 GTN FAQ
GTN:F00065 FAQs Copy a dataset between histories
 Galaxy FAQ
GTN:F00408 FAQs Dataset colors
 Galaxy FAQ
GTN:F00409 FAQs Dataset snippet
 Galaxy FAQ
GTN:F00410 FAQs Datasets versus collections
 Galaxy FAQ
GTN:F00070 FAQs Importing a history
 Galaxy FAQ
GTN:F00431 FAQs Importing data from Sierra LIMS
 Galaxy FAQ
GTN:F00385 FAQs From where can I import other genomes?
 Microbiome
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:F00386 FAQs Is there a way to filter on the Kalimari database?
 Microbiome
GTN:F00288 FAQs Do you need to merge the databases? Because you can select multiple fasta files in MaxQuant.
 Proteomics
GTN:F00261 FAQs Where can I find the full listing and description of the columns in each metadata table?
 Using Galaxy and Managing your Data
GTN:F00262 FAQs When will aligned read objects be available for other data types?
 Using Galaxy and Managing your Data
GTN:F00309 FAQs Can I use these workflows on datasets generated from our laboratory?
 Proteomics
GTN:F00327 FAQs How do I know what protocol my data was sequenced with?
 Single Cell
GTN:F00328 FAQs Are Barcodes always on R1 and Sequence data on R2?
 Single Cell
GTN:F00396 FAQs Enhancing tabular dataset previews in reports/pages
 Galaxy FAQ
GTN:F00223 FAQs Additional resources to learn more about proteomic data analysis
 Proteomics
GTN:F00301 FAQs Can I use these workflows on datasets generated from our laboratory?
 Proteomics
GTN:F00302 FAQs Which search algorithms are recommended for searching the metaproteomics data?
 Proteomics
GTN:F00303 FAQs I have a really large search database, what search strategies do you recommend for searching my mass spectrometry dataset?
 Proteomics
GTN:F00374 FAQs Can this ASaiM workflow be used for single-end data?
 Microbiome
GTN:S00091 Slides Image classification in Galaxy with fruit 360 dataset
 Statistics and machine learning 2H
GTN:S00059 Slides Introduction to ChIP-Seq data analysis
 Epigenetics
GTN:S00056 Slides Introduction to ATAC-Seq data analysis
 Epigenetics 30m
GTN:S00058 Slides ChIP-seq data analysis
 Epigenetics 15M
GTN:S00060 Slides Introduction to DNA Methylation data analysis
 Epigenetics
GTN:S00037 Slides Introduction to climate data
 Climate
GTN:S00084 Slides An introduction to scRNA-seq data analysis
 Single Cell Intermediate 30m
GTN:S00124 Slides GO Enrichment Analysis on Single-Cell RNA-Seq Data
 Single Cell 1h
GTN:S00097 Slides Integrate and query local datasets and distant RDF data with AskOmics using Semantic Web technologies
 Transcriptomics
GTN:S00062 Slides Getting data into Galaxy
 Using Galaxy and Managing your Data
GTN:S00063 Slides Introduction to SRA Aligned Read Format and Cloud Metadata for SARS-CoV-2
ncbicovid19		 Using Galaxy and Managing your Data 10m
GTN:S00006 Slides Reference Data with CVMFS
 Galaxy Server administration
GTN:S00008 Slides Galactic Database
 Galaxy Server administration
GTN:S00126 Slides Intro to DataPLANT ARCs
 FAIR Data, Workflows, and Research
GTN:S00109 Slides Bioinformatics Data Types and Databases
 Foundations of Data Science 1h
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:F00264 FAQs Are these data free to use and download?
 Using Galaxy and Managing your Data
GTN:F00100 FAQs Selecting a dataset collection as input
 Galaxy FAQ
GTN:F00101 FAQs Select multiple datasets
 Galaxy FAQ
GTN:F00104 FAQs Tool doesn't recognize input datasets
 Galaxy FAQ
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
GTN:T00114 Hands-on Data source integration
 Development in Galaxy 10M
GTN:T00421 Hands-on Adding and updating best practice metadata for Galaxy tools using the bio.tools registry
 Development in Galaxy Introductory 1H
GTN:T00070 Hands-on GTN Metadata
 Contributing to the Galaxy Training Material 10m
GTN:T00060 Hands-on Tools, Data, and Workflows for tutorials
 Contributing to the Galaxy Training Material 30m
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
GTN:T00322 Hands-on Genomic Data Visualisation with JBrowse
gmodjbrowse1		 Visualisation Intermediate 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
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
GTN:T00236 Hands-on Removal of human reads from SARS-CoV-2 sequencing data
covid19		 Sequence analysis Intermediate 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
GTN:T00446 Hands-on Quality and contamination control in bacterial isolate using Illumina MiSeq Data
illuminabacteriamicrogalaxy		 Sequence analysis Introductory 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
GTN:T00269 Hands-on Interval-Wise Testing for omics data
 Statistics and machine learning 1h
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
GTN:T00265 Hands-on Image classification in Galaxy with fruit 360 dataset
 Statistics and machine learning 2H
TBA Hands-on Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy
 Imaging Intermediate 1H
TBA Hands-on Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines
RNAsmFISHbioimaging		 Imaging Introductory 30m
GTN:T00424 Hands-on CUT&RUN data analysis
 Epigenetics 3h
GTN:T00137 Hands-on ATAC-Seq data analysis
 Epigenetics 3h
GTN:T00142 Hands-on DNA Methylation data analysis
 Epigenetics 3h
GTN:T00381 Hands-on Data management in Medicinal Chemistry
fairdata-managementmedicinal-chemistrycomputational-chemistry		 Computational chemistry Introductory 1H
GTN:T00396 Hands-on Sentinel 5P data visualisation
earth-systemvolcanosatellite data		 Climate 1H
GTN:T00428 Hands-on Analyse Argo data
earth-systemoceanpangeoargo		 Climate 1H
GTN:T00046 Hands-on Visualize Climate data with Panoply netCDF viewer
interactive-tools		 Climate 1H
GTN:T00375 Hands-on Ocean Data View (ODV)
earth-systemoceangeographical information systemODVnetcdf datamapsmarine data		 Climate 1H
GTN:T00041 Hands-on Getting your hands-on climate data
 Climate 1H
GTN:T00457 Hands-on Getting your hands-on earth data
earth-systemoceanlandatmospherebiodiversity		 Climate 1H
GTN:T00376 Hands-on Ocean's variables study
earth-systemoceannetcdf data		 Climate 1H
GTN:T00366 Hands-on Filter, plot, and explore single cell RNA-seq data with Seurat (R)
paper-replicationMIGHTSrmarkdown-notebookjupyter-notebook		 Single Cell 3H
GTN:T00250 Hands-on Analysis of plant scRNA-Seq Data with Scanpy
plantspaper-replication		 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:T00374 Hands-on Importing files from public atlases
data importdata management		 Single Cell 15m
GTN:T00378 Hands-on Generating a single cell matrix using Alevin and combining datasets (bash + R)
10xpaper-replicationMIGHTSjupyter-notebook		 Single Cell 2H
GTN:T00380 Hands-on Converting NCBI Data to the AnnData Format
data managementdata import		 Single Cell 1H
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:T00456 Hands-on GO Enrichment Analysis on Single-Cell RNA-Seq Data
single cellGO enrichment		 Single Cell 3H
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
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
GTN:T00242 Hands-on Bulk matrix to ESet | Creating the bulk RNA-seq dataset for deconvolution
transcriptomicsdata management		 Single Cell 1H
TBA Hands-on Multi-sample batch correction with Harmony and SnapATAC2
10xepigenetics		 Single Cell Intermediate 4H
GTN:T00294 Hands-on Reference-based RNAseq data analysis (long)
 Transcriptomics 1h
GTN:T00296 Hands-on RNA-RNA interactome data analysis
 Transcriptomics 2H
GTN:T00295 Hands-on Reference-based RNA-Seq data analysis
bulkrna-seqcollectionsdrosophilaQCcyoa		 Transcriptomics Introductory 8h
GTN:T00288 Hands-on CLIP-Seq data analysis from pre-processing to motif detection
 Transcriptomics 6h
TBA Hands-on Importing (uploading) data from Onedata
storage		 Using Galaxy and Managing your Data Introductory 15m
GTN:T00147 Hands-on Downloading and Deleting Data in Galaxy
 Using Galaxy and Managing your Data Introductory 20M
GTN:T00163 Hands-on Creating, Editing and Importing Galaxy Workflows
workflows		 Using Galaxy and Managing your Data Intermediate 30m
GTN:T00159 Hands-on Submitting sequence data to ENA
covid19		 Using Galaxy and Managing your Data Intermediate 1h
TBA Hands-on Exporting to Onedata remote
storage		 Using Galaxy and Managing your Data Introductory 5m
GTN:T00146 Hands-on Using dataset collections
collections		 Using Galaxy and Managing your Data Intermediate 30m
GTN:T00155 Hands-on SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
ncbicovid19		 Using Galaxy and Managing your Data 30m
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
GTN:T00217 Hands-on Mass spectrometry imaging: Loading and exploring MSI data
mouseimaging		 Proteomics Introductory 45m
TBA Hands-on Single Cell Proteomics data analysis with bioconductor-scp
 Proteomics 3H
GTN:T00232 Hands-on Proteogenomics 2: Database Search
proteogenomics		 Proteomics Intermediate 15m
TBA Hands-on Neoantigen 6: Predicting HLA Binding
label-free		 Proteomics 3H
GTN:T00214 Hands-on Protein FASTA Database Handling
DDA		 Proteomics Introductory 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
TBA Hands-on Neoantigen 3: Database merge and FragPipe discovery
label-free		 Proteomics 3H
GTN:T00413 Hands-on Clinical Metaproteomics 1: Database-Generation
label-TMT11		 Proteomics 3H
TBA Hands-on Neoantigen 4: PepQuery2 Verification
label-free		 Proteomics 3H
GTN:T00222 Hands-on metaQuantome 1: Data creation
microgalaxy		 Proteomics Intermediate 1h
GTN:T00227 Hands-on Peptide Library Data Analysis
 Proteomics Intermediate 20m
TBA Hands-on Neoantigen 7: IEDB binding PepQuery Validated Neopeptides
label-free		 Proteomics 3H
GTN:T00231 Hands-on Proteogenomics 1: Database Creation
proteogenomics		 Proteomics Intermediate 30m
GTN:T00218 Hands-on Label-free data analysis using MaxQuant
DDAlabel-free		 Proteomics Introductory 1H
TBA Hands-on Neoantigen 2: Non-Reference-Database-Generation
label-free		 Proteomics 3H
GTN:T00417 Hands-on Clinical Metaproteomics 5: Data Interpretation
label-TMT11		 Proteomics 3H
TBA Hands-on Multiomics data analysis using MultiGSEA
multi-omicstranscriptomicsproteomicsmetabolomics		 Proteomics 1H
GTN:T00219 Hands-on MaxQuant and MSstats for the analysis of label-free data
label-free		 Proteomics Intermediate 2H
GTN:T00036 Hands-on Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data
illuminaassemblymicrogalaxy		 Assembly 2h
GTN:T00033 Hands-on Genome assembly using PacBio data
assemblypacbio		 Assembly Intermediate 6h
GTN:T00037 Hands-on Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)
nanoporeassemblyamrmicrogalaxy		 Assembly Introductory 2h
GTN:T00039 Hands-on Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step
pacbioeukaryoteVGP		 Assembly Intermediate 5h
GTN:T00040 Hands-on Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data
pacbioeukaryoteVGP		 Assembly Intermediate 2h
TBA Hands-on Phylogenetic analysis for bacterial comparative genomics
microgalaxywork-in-progress		 Evolution Introductory 1H
GTN:T00008 Hands-on Enable upload via FTP
datagit-gat		 Galaxy Server administration 1h
GTN:T00329 Hands-on Reference Data with Data Managers
 Galaxy Server administration 1h
GTN:T00003 Hands-on Reference Data with CVMFS
ansiblegit-gat		 Galaxy Server administration 1h
TBA Hands-on Configuring the Onedata connectors (remotes, Object Store, BYOS, BYOD)
storage		 Galaxy Server administration Intermediate 40m
GTN:T00004 Hands-on Reference Data with CVMFS without Ansible
 Galaxy Server administration 1h
GTN:T00005 Hands-on Data Libraries
ansiblestoragegit-gat		 Galaxy Server administration 30m
GTN:T00006 Hands-on Galaxy Database schema
 Galaxy Server administration 2h
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
GTN:T00185 Hands-on Upload data to Galaxy
 Introduction to Galaxy Analyses Introductory 40m
GTN:T00184 Hands-on Data Manipulation Olympics
cyoa		 Introduction to Galaxy Analyses Introductory 1h
GTN:T00188 Hands-on NGS data logistics
 Introduction to Galaxy Analyses 1H30M
GTN:T00395 Hands-on Taxonomic Profiling and Visualization of Metagenomic Data
metagenomicstaxonomic profilingmicrogalaxy		 Microbiome Introductory 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:T00441 Hands-on Building an amplicon sequence variant (ASV) table from 16S data using DADA2
metabarcoding16Smicrogalaxy		 Microbiome 3H
GTN:T00387 Hands-on Binning of metagenomic sequencing data
binningmetagenomicsmicrogalaxy		 Microbiome Introductory 2H
GTN:T00388 Hands-on Metatranscriptomics analysis using microbiome RNA-seq data
metatranscriptomicsmicrogalaxy		 Microbiome Introductory 5H
GTN:T00385 Hands-on Analyses of metagenomics data - The global picture
microgalaxy		 Microbiome 2H30M
GTN:T00392 Hands-on 16S Microbial analysis with Nanopore data
metabarcoding16Snanoporemicrogalaxyplants		 Microbiome 2H
GTN:T00447 Hands-on Calculating α and β diversity from microbiome taxonomic data
metagenomicsdiversity		 Microbiome Introductory 20M
GTN:T00389 Hands-on Metatranscriptomics analysis using microbiome RNA-seq data (short)
metatranscriptomicsmicrogalaxy		 Microbiome Introductory 3H
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:T00386 Hands-on Assembly of metagenomic sequencing data
assemblymetagenomicsmicrogalaxy		 Microbiome Introductory 2H
GTN:T00316 Hands-on Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
covid19virologyone-health		 Variant Analysis Intermediate 3H
GTN:T00320 Hands-on Trio Analysis using Synthetic Datasets from RD-Connect GPAP
cyoa		 Variant Analysis Advanced 2H
GTN:T00308 Hands-on Avian influenza viral strain analysis from gene segment sequencing data
virologyone-health		 Variant Analysis Intermediate 4H
GTN:T00448 Hands-on Querying the University of Bradford GDC Beacon Database for Copy Number Variants (CNVs)
 Variant Analysis Introductory 30M
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:T00317 Hands-on Somatic Variant Discovery from WES Data Using Control-FREEC
 Variant Analysis 3H
GTN:T00434 Hands-on Persistent Identifiers
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 30M
GTN:T00466 Hands-on DataPLANT ARCs
plantsfairdata stewardship		 FAIR Data, Workflows, and Research 2H
GTN:T00368 Hands-on Making clinical datasets FAIR
fairopendata stewardship		 FAIR Data, Workflows, and Research 1H
GTN:T00362 Hands-on FAIR Bioimage Metadata
fairdata managementbioimaging		 FAIR Data, Workflows, and Research 15m
GTN:T00432 Hands-on Metadata
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 40M
GTN:T00351 Hands-on FAIR in a nutshell
fairopendata stewardship		 FAIR Data, Workflows, and Research 10M
GTN:T00349 Hands-on FAIR data management solutions
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 10M
GTN:T00433 Hands-on FAIR and its Origins
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 40M
GTN:T00361 Hands-on REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data
fairdata managementbioimaging		 FAIR Data, Workflows, and Research 15m
GTN:T00431 Hands-on Data Registration
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 40M
GTN:T00435 Hands-on FAIRification of an RNAseq dataset
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 1H
GTN:T00454 Hands-on Introduction to Data Management Plan (DMP) for Peatland Research and PeatDataHub
fairopendata management plan		 FAIR Data, Workflows, and Research Introductory 30M
GTN:T00369 Hands-on Sequence data submission to ENA
FAIRENA		 FAIR Data, Workflows, and Research 1H
GTN:T00430 Hands-on Access
fairdmpdata stewardship		 FAIR Data, Workflows, and Research 50M
GTN:T00196 Hands-on Mass spectrometry: LC-MS data processing
 Metabolomics Introductory 2H
GTN:T00344 Hands-on Mass spectrometry: GC-MS data processing (with XCMS, RAMClustR, RIAssigner, and matchms)
 Metabolomics Intermediate 2H
TBA Hands-on Creating community content
 Galaxy Community Building 30M
TBA Hands-on Cleaning GBIF data using OpenRefine
 Ecology 0h45m
GTN:T00422 Hands-on Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities
MetadataEMLEcologyBiodiversityFAIRData Paper		 Ecology 30M
GTN:T00124 Hands-on Metabarcoding/eDNA through Obitools
Genetic composition EBV classCommunity composition EBV classEBV datasetEBV workfloweDNAMetabarcoding		 Ecology 1H
TBA Hands-on Data submission using ENA upload Tool
 Ecology 2h
GTN:T00400 Hands-on From NDVI data with OpenEO to time series visualisation with Holoviews
earth-systemland degradationNDVIcopernicusholoviews		 Ecology 1H
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
GTN:T00125 Hands-on Compute and analyze biodiversity metrics with PAMPA toolsuite
Species population EBV classCommunity composition EBV classEBV datasetEBV workflowmodeling		 Ecology 2H
GTN:T00127 Hands-on Champs blocs indicators
Ecosystem EBV classEBV datasetEBV workflowMarine ecosystems		 Ecology 1H
GTN:T00399 Hands-on Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS
MetadataEMLFAIRData Paper		 Ecology 30M
GTN:T00126 Hands-on Biodiversity data exploration
taxonomic datadata quality		 Ecology 1H
GTN:T00131 Hands-on Visualize EBV cube data with Panoply netCDF viewer
interactive-toolsEBV cubeData visualization		 Ecology 1H
GTN:T00130 Hands-on RAD-Seq to construct genetic maps
RAD-seqGenetic composition EBV classEBV datasetEBV workflow		 Ecology 8h
GTN:T00367 Hands-on QGIS Web Feature Services
earth-systemGISGeographical Information SystemWFSSpatial dataMapsOGC		 Ecology 0H30M
GTN:T00455 Hands-on Ecoregionalization workflow tutorial
ecologytaxonomic dataEBV workflowmodelinggbifoceanearth-systeminteractive-tools		 Ecology 2H
GTN:T00134 Hands-on Regional GAM
Species populations EBV classSpecies traits EBV classEBV datasetEBV workflow		 Ecology 2h30m
GTN:T00136 Hands-on Visualization of Climate Data using NetCDF xarray Map Plotting
pangeo		 Ecology Introductory 1H
GTN:T00129 Hands-on Cleaning GBIF data for the use in Ecology
gbifdata managementdata cleaning		 Ecology 0H30M
GTN:T00132 Hands-on Preparing genomic data for phylogeny reconstruction
phylogenydata handlingfunctional annotation		 Ecology 3H
GTN:T00104 Hands-on dplyr & tidyverse for data processing
Rrmarkdown-notebookjupyter-notebook		 Foundations of Data Science Advanced 1H
GTN:T00425 Hands-on Versioning your code and data with git
 Foundations of Data Science 1h
TBA Hands-on Python - Warm-up for statistics and machine learning
elixirai-mlwork-in-progressjupyter-notebook		 Foundations of Data Science Introductory 1H
GTN:T00078 Hands-on Data Manipulation Olympics - SQL
cyoasqljupyter-notebook		 Foundations of Data Science Introductory 1h
GTN:T00352 Hands-on Data Manipulation Olympics - JQ
cyoajson		 Foundations of Data Science Introductory 1h
GTN:T00419 Hands-on Data manipulation with Pandas
jupyter-notebook		 Foundations of Data Science 1h
GTN:T00353 Hands-on Data visualisation Olympics - Visualization in R
cyoaRrmarkdown-notebookjupyter-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:F00258 FAQs UCSC import: what should my file look like?
 Epigenetics
GTN:F00375 FAQs Why don't we perform the V-Search dereplication step of ASaiM for metatrascriptomic data?
 Microbiome
GTN:F00281 FAQs Can EncyclopeDIA be run on a DIA-MS dataset without a spectral library?
 Proteomics
GTN:F00121 FAQs Importing a workflow
 Galaxy FAQ
GTN:F00364 FAQs Import workflows from DockStore
 Galaxy FAQ
GTN:F00122 FAQs Importing a workflow using the Tool Registry Server (TRS) search
 Galaxy FAQ
GTN:F00367 FAQs Importing and Launching a Dockstore Workflow
 Galaxy FAQ
GTN:F00176 FAQs Importing and launching a GTN workflow
 Galaxy FAQ
GTN:F00368 FAQs Importing and Launching a WorkflowHub.eu Workflow
 Galaxy FAQ
GTN:W00124 Workflow WGS Part In "Analyses Of Metagenomics Data - The Global Picture"
 Microbiome
GTN:W00041 Workflow Retrieve climate data from Copernicus
 Contributing to the Galaxy Training Material
GTN:W00184 Workflow GTN - Sequence Analyses - Quality Control (imported from uploaded file)
 Sequence analysis
GTN:W00180 Workflow GTN - Sequence Analyses - Removal of human reads from SARS-CoV-2 sequencing data
 Sequence analysis
GTN:W00322 Workflow Primer design of a virus family (imported from uploaded file)
 Sequence analysis
GTN:W00181 Workflow GTN - Sequence Analyses - Mapping - Jbrowse (imported from uploaded file)
 Sequence analysis
GTN:W00182 Workflow GTN - Sequence Analyses - Mapping (imported from uploaded file)
 Sequence analysis
GTN:W00275 Workflow Quality and contamination control in bacterial isolate using Illumina MiSeq Data
 Sequence analysis
GTN:W00038 Workflow Data management in Medicinal Chemistry workflow
 Computational chemistry
GTN:W00028 Workflow Sentinel5 volcanic data
 Climate
GTN:W00022 Workflow Analyse Argo data
Climate
GTN:W00199 Workflow AnnData object to Monocle input files
 Single Cell
GTN:W00195 Workflow Combining datasets after pre-processing
 Single Cell
GTN:W00210 Workflow Preprocessing of 10X scRNA-seq data
 Single Cell
GTN:W00185 Workflow EBI SCXA to AnnData (Scanpy) or Seurat Object
 Single Cell
GTN:W00206 Workflow NCBI to Anndata
 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:W00274 Workflow Workflow - Standard processing of 10X single cell ATAC-seq data with SnapATAC2
 Single Cell
GTN:W00187 Workflow MuSiC-Deconvolution: Data generation | sc | matrix + ESet
 Single Cell
GTN:W00188 Workflow MuSiC-Deconvolution: Data generation | sc | metadata
 Single Cell
GTN:W00203 Workflow AnnData to Cell Data Set (CDS) conversion
 Single Cell
GTN:W00204 Workflow AnnData to Seurat 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
GTN:W00189 Workflow MuSiC-Deconvolution: Data generation | bulk | ESet
 Single Cell
GTN:W00191 Workflow Scanpy Parameter Iterator workflow full (imported from URL)
 Single Cell
GTN:W00249 Workflow RNA Seq Genes To Pathways (imported from uploaded file)
 Transcriptomics
GTN:W00239 Workflow BY-COVID: Data Download
 Transcriptomics
GTN:W00247 Workflow RNA-RNA interactome data analysis - chira v1.4.3
 Transcriptomics
GTN:W00077 Workflow Intermine import/export
 Using Galaxy and Managing your Data
GTN:W00156 Workflow MS Imaging Loading Exploring Data
 Proteomics
GTN:W00173 Workflow GTN Proteogemics2 Database Search
 Proteomics
GTN:W00153 Workflow Proteomics: database handling
 Proteomics
GTN:W00154 Workflow Proteomics: database handling including mycoplasma
 Proteomics
GTN:W00300 Workflow GigaScience_Database_merge_FragPipe_STS26T_demonstration
 Proteomics
GTN:W00277 Workflow WF1_Database_Generation_Workflow
 Proteomics
GTN:W00161 Workflow metaQuantome_datacreation_workflow
 Proteomics
GTN:W00166 Workflow Copy of PeptideDataAnalysis (imported from uploaded file)
 Proteomics
GTN:W00172 Workflow GTN Proteogenomics1 Database Creation
 Proteomics
GTN:W00281 Workflow WF5_Data_Interpretation_Worklow
 Proteomics
GTN:W00170 Workflow ProteinID SG PS Tutorial WF datasetCollection
 Proteomics
GTN:W00018 Workflow Genome Assembly of MRSA using Illumina MiSeq Data
 Assembly
GTN:W00007 Workflow Genome Assembly using PacBio data
 Assembly
GTN:W00013 Workflow Data QC - upgraded
 Assembly
GTN:W00019 Workflow Genome Assembly of MRSA using Oxford Nanopore MinION (and Illumina data if available)
 Assembly
TBA Workflow Metagenomics assembly tutorial workflow
 Assembly
TBA Workflow workflow-generate-dataset-for-assembly-tutorial
 Assembly
GTN:W00072 Workflow Tree Building (imported from uploaded file)
 Evolution
GTN:W00107 Workflow GTN Tutorial: Data manipulation Olympics - all steps and exercises
 Introduction to Galaxy Analyses
TBA Workflow WF2_Discovery-Workflow
 Microbiome
GTN:W00147 Workflow Taxonomic Profiling and Visualization of Metagenomic Data
 Microbiome
TBA Workflow WF3_VERIFICATION_WORKFLOW
 Microbiome
GTN:W00122 Workflow Building an amplicon sequence variant (ASV) table from 16S data using DADA2
 Microbiome
TBA Workflow WF4_Quantitation_Workflow
 Microbiome
TBA Workflow WF1_Database_Generation_Workflow
 Microbiome
GTN:W00134 Workflow Workflow 2: Data Cleaning And Chimera Removal [Galaxy Training: 16S Microbial Analysis With Mothur]
 Microbiome
GTN:W00276 Workflow Calculating diversity from microbiome taxonomic data
 Microbiome
GTN:W00297 Workflow Query a metaplasmidome database to identify and annotate plasmids in metagenomes
 Microbiome
TBA Workflow WF5_Data_Interpretation_Worklow
 Microbiome
GTN:W00126 Workflow workflow-generate-dataset-for-assembly-tutorial
 Microbiome
GTN:W00267 Workflow Somatic-Variant-Discovery-from-WES-Data-Using-Control-FREEC
 Variant Analysis
TBA Workflow Data management in Medicinal Chemistry workflow
 FAIR Data, Workflows, and Research
GTN:W00118 Workflow Workflow Constructed From History 'imported: testpourGCC'
 Metabolomics
GTN:W00045 Workflow Workflow 'Biodiversity data exploration tuto'
 Ecology
GTN:W00048 Workflow GBIF data Quality check and filtering workflow Feb-2020
 Ecology
GTN:W00053 Workflow preparing genomic data for phylogeny recostruction (GTN)
 Ecology
TBA Workflow GTN Tutorial: Data manipulation Olympics - all steps and exercises
 Foundations of Data Science