GTN Materials Search

We are testing a new search experience. It does not do semantic ranking of results, but it's maybe a nicer and faster interface. In the future we might bring back the ranking of results. If you wish to access the old search interface, it will remain available here.

Tell us what you think!

Identifier Type Title Topic Level Length
GTN:N00072 News GTN ❤️ GMOD
new topicnew featuregenome-annotationGMOD
GTN:N00053 News New Galaxy training: Genome-wide alternative splicing analysis
new tutorialtranscriptomics
GTN:N00029 News New Tutorials: PacBio data QC and Genome Assembly, and Genome Annotation with Funannotate
new tutorialassemblygenome-annotation
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:N00016 News New Tutorial: Genome Annotation with Apollo
new tutorialgenome-annotation
GTN:N00008 News New Tutorials: Genome assembly of a MRSA genome
new tutorialassemblymrsaamrnanoporeillumina
GTN:F00307 FAQs Why do we change the chromosome names in the Ensembl GTF to match the UCSC genome reference?
 Proteomics
GTN:F00024 FAQs Directly obtaining UCSC sourced *genome* identifiers
 Galaxy FAQ
GTN:F00363 FAQs Upload datasets from GenomeArk
 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
TBA FAQs How do I manage my Galaxy storage?
 Galaxy FAQ
TBA FAQs How do I manage my repositories on Galaxy?
 Galaxy FAQ
GTN:F00087 FAQs How to use Custom Reference Genomes?
 Galaxy FAQ
GTN:F00088 FAQs Sorting Reference Genome
 Galaxy FAQ
GTN:F00089 FAQs Troubleshooting Custom Genome fasta
 Galaxy FAQ
GTN:S00066 Slides Refining Genome Annotations with Apollo
prokaryote		 Genome Annotation 5m
GTN:S00065 Slides Genome annotation with Prokka
prokaryote		 Genome Annotation 1h
GTN:S00068 Slides High Performance Computing for Pairwise Genome Comparison
 Genome Annotation 2h
GTN:S00069 Slides Introduction to Genome Annotation
 Genome Annotation Intermediate
GTN:S00057 Slides EWAS Epigenome-Wide Association Studies Introduction
 Epigenetics
GTN:S00030 Slides Genome assembly quality control.
 Assembly Introductory
GTN:S00029 Slides Deeper look into Genome Assembly algorithms
 Assembly Intermediate
GTN:S00031 Slides Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
covid19		 Assembly 4h
GTN:S00034 Slides An introduction to get started in genome assembly and annotation
 Assembly Introductory 1h
GTN:S00033 Slides An Introduction to Genome Assembly
 Assembly 30m
GTN:S00021 Slides Reference Genomes in Galaxy
 Galaxy Server administration
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
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
TBA Hands-on Contributing to the Galaxy Training Network with GitHub
 Contributing to the Galaxy Training Material 30m
GTN:T00373 Hands-on Ploting a Microbial Genome with Circos
 Visualisation Intermediate 30m
GTN:T00169 Hands-on Refining Genome Annotations with Apollo (prokaryotes)
gmodprokaryotemicrogalaxyjbrowse1apollo2		 Genome Annotation Intermediate 3h
GTN:T00451 Hands-on Genome annotation with Helixer
eukaryotahelixerjbrowse1		 Genome Annotation Intermediate 4h
GTN:T00168 Hands-on Genome annotation with Prokka
gmodprokaryotemicrogalaxyjbrowse1		 Genome Annotation Introductory 1h
GTN:T00175 Hands-on Genome Annotation
prokaryotework-in-progress		 Genome Annotation Introductory 2H
GTN:T00401 Hands-on Identification of AMR genes in an assembled bacterial genome
gmodilluminaamrone-healthjbrowse1microgalaxy		 Genome Annotation Introductory 2h
GTN:T00167 Hands-on Genome annotation with Maker (short)
gmodeukaryotemakerjbrowse1		 Genome Annotation Intermediate 2h
TBA Hands-on Dataset construction for bacterial comparative genomics
microgalaxywork-in-progress		 Genome Annotation Introductory 1H
GTN:T00170 Hands-on Refining Genome Annotations with Apollo (eukaryotes)
gmodeukaryotecyoajbrowse1apollo2		 Genome Annotation Intermediate 3h
GTN:T00166 Hands-on Genome annotation with Maker
gmodeukaryotejbrowse1maker		 Genome Annotation Advanced 4h
TBA Hands-on Bacterial pangenomics
 Genome Annotation Introductory 1H
GTN:T00176 Hands-on From small to large-scale genome comparison
plantsprokaryote		 Genome Annotation 2H
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
GTN:T00172 Hands-on Genome annotation with Funannotate
gmodeukaryotejbrowse1		 Genome Annotation Intermediate 8h
TBA Hands-on Bacterial genome quality control
microgalaxywork-in-progress		 Genome Annotation Introductory 1H
GTN:T00174 Hands-on Comparative gene analysis in unannotated genomes
evolutionannotationvgpcookbookeukaryoteprokaryotemicrogalaxy		 Genome Annotation 30M
GTN:T00403 Hands-on Bacterial Genome Annotation
gmodilluminabacteriamicrogalaxyjbrowse1		 Genome Annotation Introductory 3H
GTN:T00439 Hands-on Screening assembled genomes for contamination using NCBI FCS
 Sequence analysis 90M
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
TBA Hands-on Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines
RNAsmFISHbioimaging		 Imaging Introductory 30m
TBA Hands-on Clustering 3K PBMCs with Seurat
10x		 Single Cell Introductory 8H
TBA Hands-on Evaluating Reference Data for Bulk RNA Deconvolution
transcriptomics		 Single Cell 2H
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:T00345 Hands-on Genome-wide alternative splicing analysis
alternative splicingisoform switching		 Transcriptomics Advanced 3H
TBA Hands-on Importing (uploading) data from Onedata
storage		 Using Galaxy and Managing your Data Introductory 15m
GTN:T00163 Hands-on Creating, Editing and Importing Galaxy Workflows
workflows		 Using Galaxy and Managing your Data Intermediate 30m
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
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:T00028 Hands-on Genome Assembly Quality Control
assemblyquality control		 Assembly Intermediate 2h
GTN:T00453 Hands-on Assembly of the mitochondrial genome from PacBio HiFi reads
 Assembly 1H
GTN:T00029 Hands-on Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
covid19		 Assembly Intermediate 4h
GTN:T00331 Hands-on Large genome assembly and polishing
assemblypolishingnanoporeplants		 Assembly 2h
GTN:T00034 Hands-on An Introduction to Genome Assembly
 Assembly Introductory 30m
GTN:T00355 Hands-on ERGA post-assembly QC
plantsanimalsgenomeassemblyQC		 Assembly 3H
GTN:T00037 Hands-on Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)
nanoporeassemblyamrmicrogalaxy		 Assembly Introductory 2h
GTN:T00030 Hands-on Chloroplast genome assembly
plantsnanoporejbrowse1		 Assembly 2h
GTN:T00032 Hands-on Making sense of a newly assembled genome
gmodprokaryotemicrogalaxyjbrowse1		 Assembly 4h
GTN:T00452 Hands-on Decontamination of a genome assembly
 Assembly 1H30M
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
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: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:T00347 Hands-on Pox virus genome analysis from tiled-amplicon sequencing data
virologyone-health		 Variant Analysis Advanced 4H
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:F00423 FAQs Open History files in Integrated Genome Browser (IGB)
 Galaxy FAQ
GTN:F00231 FAQs Add genome and annotations to IGV from Galaxy
 Visualisation
GTN:W00088 Workflow Genome Annotation with Prokka
Genome Annotation
GTN:W00008 Workflow Intro to Genome Assembly
 Assembly
GTN:W00087 Workflow Genome annotation with Maker (short)
 Genome Annotation
GTN:W00086 Workflow Genome annotation with Maker
Genome Annotation
GTN:W00320 Workflow Genome annotation with Braker3
 Genome Annotation
GTN:W00090 Workflow Bacterial Genome Annotation
 Genome Annotation
GTN:W00018 Workflow Genome Assembly of MRSA using Illumina MiSeq Data
 Assembly
GTN:W00007 Workflow Genome Assembly using PacBio data
 Assembly
GTN:W00001 Workflow Genome Assembly Quality Control
 Assembly
GTN:W00285 Workflow Mitogenome-Assembly-VGP0
 Assembly
GTN:W00011 Workflow Assess genome quality - upgraded
 Assembly
GTN:W00012 Workflow Combined workflows for large genome assembly - upgraded
Assembly
GTN:W00019 Workflow Genome Assembly of MRSA using Oxford Nanopore MinION (and Illumina data if available)
 Assembly
GTN:W00004 Workflow Chloroplast-genome-assembly-and-annotation
 Assembly
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
GTN:W00297 Workflow Query a metaplasmidome database to identify and annotate plasmids in metagenomes
 Microbiome
TBA Workflow WF5_Data_Interpretation_Worklow
 Microbiome
TBA Workflow Data management in Medicinal Chemistry workflow
 FAIR Data, Workflows, and Research
GTN:W00054 Workflow Workflow Constructed From History 'STACKS RAD: Population Genomics With Reference Genome'
 Ecology
TBA Workflow GTN Tutorial: Data manipulation Olympics - all steps and exercises
 Foundations of Data Science