Saskia Hiltemann
Researcher at Erasmus Medical Center
Affiliations
Former Affiliations
Contributions
The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.
Editorial Roles
This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.
- Topic: Foundations of Data Science
- Topic: Microbiome
- Topic: Plants
- Topic: Visualisation
- Learning Pathway: Introduction to Galaxy and Sequence analysis
- Learning Pathway: Gallantries Grant - Intellectual Output 1 - Introduction to data analysis and -management, statistics, and coding
- Learning Pathway: Gallantries Grant - Intellectual Output 2 - Large-scale data analysis, and introduction to visualisation and data modelling
- Learning Pathway: Gallantries Grant - Intellectual Output 3 - Data stewardship, federation, standardisation, and collaboration
- Learning Pathway: Creation of a Community CoDex and lab (and optionally of a Special Interest Group (SIG))
Tutorials
- Computational chemistry / Protein target prediction of a bioactive ligand with Align-it and ePharmaLib 🧐
- Computational chemistry / Protein-ligand docking 🧐
- Computational chemistry / Analysis of molecular dynamics simulations 🧐
- Computational chemistry / Virtual screening of the SARS-CoV-2 main protease with rxDock and pose scoring 🧐
- Computational chemistry / Running molecular dynamics simulations using GROMACS 🧐
- Computational chemistry / High Throughput Molecular Dynamics and Analysis 🧐
- Computational chemistry / Running molecular dynamics simulations using NAMD 🧐
- Computational chemistry / Setting up molecular systems 🧐
- Statistics and machine learning / Deep Learning (Part 3) - Convolutional neural networks (CNN) 🧐
- Statistics and machine learning / Basics of machine learning 🧐
- Statistics and machine learning / Train and Test a Deep learning image classifier with Galaxy-Ludwig 🧐
- Statistics and machine learning / PAPAA PI3K_OG: PanCancer Aberrant Pathway Activity Analysis 🧐
- Statistics and machine learning / Text-mining with the SimText toolset 🧐
- Statistics and machine learning / Age prediction using machine learning 🧐
- Statistics and machine learning / Regression in Machine Learning 🧐
- Statistics and machine learning / Clustering in Machine Learning 🧐
- Statistics and machine learning / Building the LORIS LLR6 PanCancer Model Using PyCaret 🧐
- Statistics and machine learning / Deep Learning (Part 1) - Feedforward neural networks (FNN) 🧐
- Statistics and machine learning / Image classification in Galaxy with fruit 360 dataset 🧐
- Statistics and machine learning / Neural networks using Python 🧐
- Statistics and machine learning / Introduction to deep learning 🧐
- Statistics and machine learning / Foundational Aspects of Machine Learning using Python 🧐
- Statistics and machine learning / Classification in Machine Learning 🧐
- Statistics and machine learning / Deep Learning (Part 2) - Recurrent neural networks (RNN) 🧐
- Statistics and machine learning / Machine learning: classification and regression 🧐
- Statistics and machine learning / Fine tune large protein model (ProtTrans) using HuggingFace 🧐
- Statistics and machine learning / A Docker-based interactive Jupyterlab powered by GPU for artificial intelligence in Galaxy 🧐
- Statistics and machine learning / Interval-Wise Testing for omics data 🧐
- Statistics and machine learning / Deep Learning (without Generative Artificial Intelligence) using Python 🧐
- Statistics and machine learning / Introduction to Machine Learning using R 🧐
- Statistics and machine learning / Regulations/standards for AI using DOME 🧐
- Galaxy Server administration / Galaxy Tool Management with Ephemeris 🧐
- Galaxy Server administration / Deploying a Beacon v1 in Galaxy 📝 🧐
- Galaxy Server administration / Galaxy Installation with Ansible 📝 🧐
- Galaxy Server administration / Connecting Galaxy to a compute cluster 🧐
- Galaxy Server administration / Galaxy Monitoring with gxadmin 🧐
- Galaxy Server administration / Enable upload via FTP 🧐
- Galaxy Server administration / Upgrading Galaxy 🧐
- Galaxy Server administration / Managing Galaxy on Kubernetes 🧐
- Galaxy Server administration / Deploying Wireguard for private mesh networking 🧐
- Galaxy Server administration / Reference Data with CVMFS 🧐
- Galaxy Server administration / Create a subdomain for your community on UseGalaxy.eu 🧐
- Galaxy Server administration / Galaxy Monitoring with Telegraf and Grafana 🧐
- Galaxy Server administration / Performant Uploads with TUS 🧐
- Galaxy Server administration / Distributed Object Storage 🧐
- Galaxy Server administration / Monitoring Galaxy and Pulsar with Sentry 🧐
- Galaxy Server administration / Galaxy Interactive Tools 🧐
- Galaxy Server administration / Galaxy Installation on Kubernetes 🧐
- Galaxy Server administration / Data Libraries ✍️ 🧐
- Galaxy Server administration / Pulsar usage on SURF Research Cloud 🧐
- Galaxy Server administration / Server Maintenance: Cleanup, Backup, and Restoration 🧐
- Galaxy Server administration / Galaxy Monitoring with Reports 🧐
- Galaxy Server administration / Running Jobs on Remote Resources with Pulsar 🧐
- Galaxy Server administration / Ansible ✍️ 🧐
- Galaxy Server administration / How I learned to stop worrying and love the systemd 🧐
- Galaxy Server administration / Training Infrastructure as a Service (TIaaS) ✍️ 🧐
- Galaxy Server administration / Galaxy usage on SURF Research Cloud 🧐
- Galaxy Server administration / Deploying a compute cluster in OpenStack via Terraform 🧐
- Galaxy Server administration / Mapping Jobs to Destinations using TPV 🧐
- Galaxy Server administration / Deploying Tailscale/Headscale for private mesh networking 🧐
- Galaxy Server administration / Customizing the look of Galaxy 🧐
- Galaxy Server administration / External Authentication 🧐
- Galaxy Server administration / Use Apptainer containers for running Galaxy jobs 🧐
- Galaxy Server administration / Galaxy Database schema 🧐
- Galaxy Server administration / Automation with Jenkins 🧐
- Galaxy Server administration / Setting up Celery Workers for Galaxy 🧐
- Galaxy Server administration / Reference Data with CVMFS without Ansible 🧐
- Galaxy Community Building / Creating a Special Interest Group 📝 🧐
- Galaxy Community Building / Creating community content ✍️ 🧐
- Galaxy Community Building / Creation of resources listing Galaxy workflow for your community 🧐
- Galaxy Community Building / Make your tools available on your subdomain 🧐
- Galaxy Community Building / Creation of resources listing all the tools and their metadata relevant to your community 🧐
- Galaxy Community Building / Creation of a Galaxy tutorial table for your community 🧐
- Galaxy Community Building / What's a Special Interest Group? 📝 🧐
- Assembly / Genome Assembly Quality Control 🧐
- Assembly / Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data) 📝 🧐
- Assembly / Large genome assembly and polishing 🧐
- Assembly / ERGA post-assembly QC 🧐
- Assembly / An Introduction to Genome Assembly 🧐
- Assembly / Chloroplast genome assembly 🧐
- Assembly / Decontamination of a genome assembly 🧐
- Assembly / Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data 📝 🧐
- Assembly / De Bruijn Graph Assembly ✍️ 🧐
- Assembly / Unicycler Assembly 🧐
- Assembly / Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads 🧐
- Assembly / Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step 🧐
- Assembly / Genome assembly using PacBio data 🧐
- Assembly / Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data 🧐
- Assembly / Making sense of a newly assembled genome 🧐
- Genome Annotation / Genome annotation with Maker 🧐
- Genome Annotation / From small to large-scale genome comparison 🧐
- Genome Annotation / Refining Genome Annotations with Apollo (eukaryotes) 🧐
- Genome Annotation / Long non-coding RNAs (lncRNAs) annotation with FEELnc 🧐
- Genome Annotation / Genome Annotation 🧐
- Genome Annotation / Identification of AMR genes in an assembled bacterial genome 📝 🧐
- Genome Annotation / Creating an Official Gene Set 🧐
- Genome Annotation / Functional annotation of protein sequences 🧐
- Genome Annotation / Essential genes detection with Transposon insertion sequencing 🧐
- Genome Annotation / CRISPR screen analysis 🧐
- Genome Annotation / Genome annotation with Funannotate 🧐
- Genome Annotation / Masking repeats with RepeatMasker 🧐
- Genome Annotation / Secondary metabolite discovery 🧐
- Genome Annotation / Refining Genome Annotations with Apollo (prokaryotes) 🧐
- Genome Annotation / Genome annotation with Braker3 🧐
- Genome Annotation / Genome annotation with Helixer 🧐
- Genome Annotation / Genome annotation with Prokka 🧐
- Genome Annotation / Comparative gene analysis in unannotated genomes 🧐
- Using Galaxy and Managing your Data / Rule Based Uploader 🧐
- Using Galaxy and Managing your Data / Group tags for complex experimental designs 🧐
- Using Galaxy and Managing your Data / SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis 🧐
- Using Galaxy and Managing your Data / Automating Galaxy workflows using the command line 🧐
- Using Galaxy and Managing your Data / RStudio in Galaxy 🧐
- Using Galaxy and Managing your Data / Extracting Workflows from Histories 🧐
- Using Galaxy and Managing your Data / Use Jupyter notebooks in Galaxy 🧐
- Using Galaxy and Managing your Data / Workflow Reports ✍️ 🧐
- Using Galaxy and Managing your Data / Downloading and Deleting Data in Galaxy 🧐
- Using Galaxy and Managing your Data / Creating, Editing and Importing Galaxy Workflows 🧐
- Using Galaxy and Managing your Data / Rule Based Uploader: Advanced 🧐
- Using Galaxy and Managing your Data / InterMine integration with Galaxy 🧐
- Using Galaxy and Managing your Data / Using dataset collections 🧐
- Using Galaxy and Managing your Data / Searching Your History 🧐
- Using Galaxy and Managing your Data / JupyterLab in Galaxy 🧐
- Using Galaxy and Managing your Data / Submitting sequence data to ENA 🧐
- Using Galaxy and Managing your Data / Name tags for following complex histories 🧐
- Using Galaxy and Managing your Data / Using Workflow Parameters 🧐
- Using Galaxy and Managing your Data / Understanding Galaxy history system 📝 🧐
- Ecology / Phylodiversity analysis quick tutorial 🧐
- Ecology / Sentinel 2 biodiversity 🧐
- Ecology / Compute and analyze biodiversity metrics with PAMPA toolsuite 🧐
- Ecology / RAD-Seq to construct genetic maps 🧐
- Ecology / Champs blocs indicators 🧐
- Ecology / Visualize EBV cube data with Panoply netCDF viewer 🧐
- Ecology / Species distribution modeling 🧐
- Ecology / Visualization of Climate Data using NetCDF xarray Map Plotting 🧐
- Ecology / RAD-Seq de-novo data analysis 🧐
- Ecology / Regional GAM 🧐
- Ecology / Metabarcoding/eDNA through Obitools 🧐
- Ecology / Obis marine indicators 🧐
- Ecology / Preparing genomic data for phylogeny reconstruction 🧐
- Ecology / Ecoregionalization workflow tutorial 🧐
- Ecology / Life Traits Ecoregionalization workflow 🧐
- Ecology / Checking expected species and contamination in bacterial isolate 🧐
- Ecology / RAD-Seq Reference-based data analysis 🧐
- Ecology / Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS 🧐
- Ecology / Taxonomic Analysis of eDNA 🧐
- Ecology / Cleaning GBIF data for the use in Ecology 🧐
- Ecology / Marine Omics identifying biosynthetic gene clusters 🧐
- Ecology / Biodiversity data exploration 🧐
- Ecology / Cleaning GBIF data using OpenRefine 🧐
- Ecology / QGIS Web Feature Services 🧐
- Ecology / Data submission using ENA upload Tool 🧐
- Evolution / Identifying tuberculosis transmission links: from SNPs to transmission clusters 🧐
- Evolution / Tree thinking for tuberculosis evolution and epidemiology 🧐
- Metabolomics / Mass spectrometry: GC-MS analysis with the metaMS package 🧐
- Metabolomics / Mass spectrometry: LC-MS analysis 🧐
- Metabolomics / Mass spectrometry: GC-MS data processing (with XCMS, RAMClustR, RIAssigner, and matchms) 🧐
- Metabolomics / Mass spectrometry: LC-MS data processing 🧐
- Metabolomics / Mass spectrometry imaging: Examining the spatial distribution of analytes 🧐
- Metabolomics / Predicting EI+ mass spectra with QCxMS 🧐
- Metabolomics / Molecular formula assignment and mass recalibration with MFAssignR package 🧐
- Metabolomics / Mass spectrometry: LC-MS preprocessing with XCMS 🧐
- Metabolomics / Mass spectrometry imaging: Finding differential analytes 🧐
- Microbiome / Antibiotic resistance detection ✍️ 🧐
- Microbiome / QIIME 2 Cancer Microbiome Intervention 🧐
- Microbiome / MGnify v5.0 Amplicon Pipeline 🧐
- Microbiome / Analyses of metagenomics data - The global picture ✍️ 🧐
- Microbiome / Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition 🧐
- Microbiome / Calculating α and β diversity from microbiome taxonomic data 🧐
- Microbiome / Taxonomic Profiling and Visualization of Metagenomic Data 🧐
- Microbiome / Assembly of metagenomic sequencing data 🧐
- Microbiome / Building an amplicon sequence variant (ASV) table from 16S data using DADA2 🧐
- Microbiome / Binning of metagenomic sequencing data 🧐
- Microbiome / Identifying Mycorrhizal Fungi from ITS2 sequencing using LotuS2 🧐
- Microbiome / 16S Microbial analysis with Nanopore data 🧐
- Microbiome / Identification of the micro-organisms in a beer using Nanopore sequencing 🧐
- Microbiome / 16S Microbial Analysis with mothur (short) ✍️ 🧐
- Microbiome / 16S Microbial Analysis with mothur (extended) ✍️ 🧐
- Microbiome / Metatranscriptomics analysis using microbiome RNA-seq data (short) ✍️ 🧐
- Microbiome / Metatranscriptomics analysis using microbiome RNA-seq data ✍️ 🧐
- Variant Analysis / Mapping and molecular identification of phenotype-causing mutations 🧐
- Variant Analysis / Pox virus genome analysis from tiled-amplicon sequencing data 🧐
- Variant Analysis / Trio Analysis using Synthetic Datasets from RD-Connect GPAP ✍️ 🧐
- Variant Analysis / Identification of somatic and germline variants from tumor and normal sample pairs 🧐
- Variant Analysis / M. tuberculosis Variant Analysis 🧐
- Variant Analysis / Calling variants in diploid systems 🧐
- Variant Analysis / Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data 🧐
- Variant Analysis / Somatic Variant Discovery from WES Data Using Control-FREEC 🧐
- Variant Analysis / Microbial Variant Calling 🧐
- Variant Analysis / Calling variants in non-diploid systems 🧐
- Variant Analysis / Avian influenza viral strain analysis from gene segment sequencing data 🧐
- Variant Analysis / From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis 🧐
- Variant Analysis / Calling very rare variants 🧐
- Variant Analysis / Exome sequencing data analysis for diagnosing a genetic disease 🧐
- Variant Analysis / Querying the University of Bradford GDC Beacon Database for Copy Number Variants (CNVs) 🧐
- Variant Analysis / Working with Beacon V2: A Comprehensive Guide to Creating, Uploading, and Searching for Variants with Beacons 🧐
- Transcriptomics / RNA-RNA interactome data analysis 🧐
- Transcriptomics / RNA Seq Counts to Viz in R 🧐
- Transcriptomics / CLIP-Seq data analysis from pre-processing to motif detection 🧐
- Transcriptomics / Genome-wide alternative splicing analysis 🧐
- Transcriptomics / De novo transcriptome assembly, annotation, and differential expression analysis 🧐
- Transcriptomics / Visualization of RNA-Seq results with heatmap2 🧐
- Transcriptomics / RNA-Seq data analysis, clustering and visualisation tutorial 📝 🧐
- Transcriptomics / Reference-based RNAseq data analysis (long) 🧐
- Transcriptomics / Reference-based RNA-Seq data analysis 🧐
- Transcriptomics / 1: RNA-Seq reads to counts 🧐
- Transcriptomics / Small Non-coding RNA Clustering using BlockClust 🧐
- Transcriptomics / RNA-seq Alignment with STAR 📝 🧐
- Transcriptomics / Whole transcriptome analysis of Arabidopsis thaliana 🧐
- Transcriptomics / Differential abundance testing of small RNAs 🧐
- Transcriptomics / Visualization of RNA-Seq results with CummeRbund 🧐
- Transcriptomics / Network analysis with Heinz 🧐
- Transcriptomics / 2: RNA-seq counts to genes 🧐
- Transcriptomics / RNA-Seq analysis with AskOmics Interactive Tool 🧐
- Transcriptomics / De novo transcriptome reconstruction with RNA-Seq 🧐
- Transcriptomics / GO Enrichment Analysis 🧐
- Transcriptomics / Visualization of RNA-Seq results with Volcano Plot in R 🧐
- Transcriptomics / Pathway analysis with the MINERVA Platform ✍️ 🧐
- Transcriptomics / Visualization of RNA-Seq results with Volcano Plot 🧐
- Foundations of Data Science / Version Control with Git 📝 🧐
- Foundations of Data Science / Python - Coding Style 🧐
- Foundations of Data Science / Python - Warm-up for statistics and machine learning 🧐
- Foundations of Data Science / Conda Environments For Software Development 🧐
- Foundations of Data Science / SQL with Python 🧐
- Foundations of Data Science / SQL Educational Game - Murder Mystery 🧐
- Foundations of Data Science / Data visualisation Olympics - Visualization in R ⚙️ 🧐
- Foundations of Data Science / Advanced R in Galaxy 🧐
- Foundations of Data Science / A (very) brief history of genomics 🧐
- Foundations of Data Science / Variant Calling Workflow ✍️ 🧐
- Foundations of Data Science / Advanced CLI in Galaxy 🧐
- Foundations of Data Science / Python - Functions 🧐
- Foundations of Data Science / Introduction to SQL 🧐
- Foundations of Data Science / Introduction to Python 🧐
- Foundations of Data Science / CLI basics 🧐
- Foundations of Data Science / Introduction to sequencing with Python (part two) 🧐
- Foundations of Data Science / Data Manipulation Olympics - JQ ✍️ 🧐
- Foundations of Data Science / Introduction to sequencing with Python (part four) 🧐
- Foundations of Data Science / dplyr & tidyverse for data processing 🧐
- Foundations of Data Science / Python - Multiprocessing 🧐
- Foundations of Data Science / Python - Argparse 🧐
- Foundations of Data Science / Virtual Environments For Software Development 🧐
- Foundations of Data Science / One protein along the UniProt page 🧐
- Foundations of Data Science / Python - Math 🧐
- Foundations of Data Science / Python - Introductory Graduation 🧐
- Foundations of Data Science / Make & Snakemake 🧐
- Foundations of Data Science / CLI Educational Game - Bashcrawl 🧐
- Foundations of Data Science / Python - Lists & Strings & Dictionaries 🧐
- Foundations of Data Science / Learning about one gene across biological resources and formats 🧐
- Foundations of Data Science / Python - Files & CSV 🧐
- Foundations of Data Science / Data manipulation with Pandas 🧐
- Foundations of Data Science / Python - Type annotations 🧐
- Foundations of Data Science / Basics of using Git from the Command Line 🧐
- Foundations of Data Science / R basics in Galaxy 🧐
- Foundations of Data Science / Advanced SQL 🧐
- Foundations of Data Science / SQL with R 🧐
- Foundations of Data Science / Plotting in Python 🧐
- Foundations of Data Science / Advanced Python 🧐
- Foundations of Data Science / Python - Testing 🧐
- Foundations of Data Science / Data Manipulation Olympics - SQL ✍️ 🧐
- Contributing to the Galaxy Training Material / Principles of learning and how they apply to training and teaching 🧐
- Contributing to the Galaxy Training Material / Contributing to the Galaxy Training Network with GitHub 🧐
- Contributing to the Galaxy Training Material / Teaching Python 🧐
- Contributing to the Galaxy Training Material / Creating a new tutorial ✍️ 🧐
- Contributing to the Galaxy Training Material / Adding auto-generated video to your slides 🧐
- Contributing to the Galaxy Training Material / Contributing with GitHub via its interface 🧐
- Contributing to the Galaxy Training Material / Generating PDF artefacts of the website 🧐
- Contributing to the Galaxy Training Material / Preview the GTN website as you edit your training material ✍️ 🧐
- Contributing to the Galaxy Training Material / Creating content in Markdown 📝 🧐
- Contributing to the Galaxy Training Material / Creating Interactive Galaxy Tours ✍️ 🧐
- Contributing to the Galaxy Training Material / GTN Metadata 🧐
- Contributing to the Galaxy Training Material / Updating diffs in admin training 🧐
- Contributing to the Galaxy Training Material / Tools, Data, and Workflows for tutorials ✍️ 🧐
- Contributing to the Galaxy Training Material / Including a new topic 🧐
- Contributing to the Galaxy Training Material / Design and plan session, course, materials 🧐
- Contributing to the Galaxy Training Material / FAIR-by-Design methodology 🧐
- Contributing to the Galaxy Training Material / Adding Quizzes to your Tutorial 🧐
- Epigenetics / CUT&RUN data analysis 🧐
- Epigenetics / ATAC-Seq data analysis 🧐
- Epigenetics / Hi-C analysis of Drosophila melanogaster cells using HiCExplorer 🧐
- Epigenetics / Identification of the binding sites of the Estrogen receptor 🧐
- Epigenetics / Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1) 🧐
- Epigenetics / Infinium Human Methylation BeadChip 🧐
- Epigenetics / Formation of the Super-Structures on the Inactive X 🧐
- Epigenetics / DNA Methylation data analysis 🧐
- Imaging / Using BioImage.IO models for image analysis in Galaxy 🧐
- Imaging / Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy 🧐
- Imaging / Object tracking using CellProfiler 🧐
- Imaging / Quantification of electrophoresis gel bands using QuPath and Galaxy imaging tools 🧐
- Imaging / Nucleoli segmentation and feature extraction using CellProfiler 🧐
- Imaging / Voronoi segmentation 🧐
- Imaging / Introduction to Image Analysis using Galaxy ✍️ 🧐
- Imaging / End-to-End Tissue Microarray Image Analysis with Galaxy-ME 🧐
- Imaging / Analyse HeLa fluorescence siRNA screen 🧐
- Climate / Sentinel 5P data visualisation 🧐
- Climate / Pangeo Notebook in Galaxy - Introduction to Xarray 🧐
- Climate / Analyse Argo data 🧐
- Climate / Pangeo ecosystem 101 for everyone - Introduction to Xarray Galaxy Tools 🧐
- Climate / Ocean's variables study 🧐
- Climate / Ocean Data View (ODV) 🧐
- Climate / Nitrate DMQC for autonomous platforms such as Argo floats 🧐
- Climate / Functionally Assembled Terrestrial Ecosystem Simulator (FATES) 🧐
- Climate / Functionally Assembled Terrestrial Ecosystem Simulator (FATES) with Galaxy Climate JupyterLab 🧐
- Climate / Getting your hands-on climate data 🧐
- Climate / Getting your hands-on earth data 🧐
- Climate / Collaboration with JupyterGIS 🧐
- Climate / Visualize Climate data with Panoply netCDF viewer 🧐
- Synthetic Biology / Evaluating and ranking a set of pathways based on multiple metrics 🧐
- Synthetic Biology / Designing plasmids encoding predicted pathways by using the BASIC assembly method 🧐
- Synthetic Biology / Generating theoretical possible pathways for the production of Lycopene in E.Coli using Retrosynthesis tools 🧐
- Single Cell / Filter, plot and explore single-cell RNA-seq data with Scanpy 🧐
- Single Cell / Removing the effects of the cell cycle 🧐
- Single Cell / Bulk RNA Deconvolution with MuSiC 🧐
- Single Cell / Generating a single cell matrix using Alevin 🧐
- Single Cell / Importing files from public atlases 🧐
- Single Cell / Single-cell ATAC-seq standard processing with SnapATAC2 🧐
- Single Cell / Clustering 3K PBMCs with Scanpy 🧐
- Single Cell / Inferring single cell trajectories with Scanpy (Python) 🧐
- Single Cell / Clustering 3K PBMCs with Seurat 📝 🧐
- Single Cell / Converting between common single cell data formats 🧐
- Single Cell / Filter, plot, and explore single cell RNA-seq data with Seurat 🧐
- Single Cell / Generating a single cell matrix using Alevin and combining datasets (bash + R) 🧐
- Single Cell / Scanpy Parameter Iterator 🧐
- Single Cell / Inferring single cell trajectories with Monocle3 (R) 🧐
- Single Cell / Combining single cell datasets after pre-processing 🧐
- Single Cell / Inferring single cell trajectories with Scanpy 🧐
- Single Cell / Pre-processing of 10X Single-Cell RNA Datasets 🧐
- Single Cell / Pre-processing of Single-Cell RNA Data 🧐
- Single Cell / Converting NCBI Data to the AnnData Format 🧐
- Single Cell / Evaluating Reference Data for Bulk RNA Deconvolution 🧐
- Single Cell / Pseudobulk Analysis with Decoupler and EdgeR 🧐
- Single Cell / Multi-sample batch correction with Harmony and SnapATAC2 🧐
- Single Cell / Inferring single cell trajectories with Monocle3 🧐
- Single Cell / Single-cell quality control with scater 🧐
- Single Cell / Bulk matrix to ESet | Creating the bulk RNA-seq dataset for deconvolution 🧐
- Single Cell / Filter, plot, and explore single cell RNA-seq data with Seurat (R) 📝 🧐
- Single Cell / Filter, plot and explore single-cell RNA-seq data with Scanpy (Python) 🧐
- Single Cell / GO Enrichment Analysis on Single-Cell RNA-Seq Data 🧐
- Single Cell / Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution 🧐
- Single Cell / Understanding Barcodes 🧐
- Single Cell / Downstream Single-cell RNA analysis with RaceID 🧐
- Single Cell / Comparing inferred cell compositions using MuSiC deconvolution 🧐
- Introduction to Galaxy Analyses / IGV Introduction 🧐
- Introduction to Galaxy Analyses / NGS data logistics 🧐
- Introduction to Galaxy Analyses / A short introduction to Galaxy 🧐
- Introduction to Galaxy Analyses / Galaxy Basics for everyone ✍️ 🧐
- Introduction to Galaxy Analyses / Upload data to Galaxy 🧐
- Introduction to Galaxy Analyses / How to reproduce published Galaxy analyses 🧐
- Introduction to Galaxy Analyses / Data Manipulation Olympics ✍️ 🧐
- Introduction to Galaxy Analyses / From peaks to genes 🧐
- Introduction to Galaxy Analyses / Introduction to Genomics and Galaxy 🧐
- Introduction to Galaxy Analyses / Very Short Introductions: QC 🧐
- Introduction to Galaxy Analyses / Galaxy Basics for genomics ✍️ 🧐
- Development in Galaxy / ToolFactory: Generating Tools From More Complex Scripts 🧐
- Development in Galaxy / Data source integration ✍️ 🧐
- Development in Galaxy / Scripting Galaxy using the API and BioBlend 🧐
- Development in Galaxy / Galaxy Interactive Tools 🧐
- Development in Galaxy / Contributing to BioBlend as a developer 🧐
- Development in Galaxy / JavaScript plugins ✍️ 🧐
- Development in Galaxy / Creating Galaxy tools from Conda Through Deployment 🧐
- Development in Galaxy / Debugging Galaxy 🧐
- Development in Galaxy / Adding and updating best practice metadata for Galaxy tools using the bio.tools registry 🧐
- Development in Galaxy / Contributing a New Feature to Galaxy Core 🧐
- Development in Galaxy / Generic plugins ✍️ 🧐
- Development in Galaxy / Writing Automated Tests for Galaxy 🧐
- Development in Galaxy / ToolFactory: Generating Tools From Simple Scripts 🧐
- Development in Galaxy / Galaxy Webhooks 🧐
- Proteomics / Neoantigen 5b: IEDB binding PepQuery Validated Neopeptides 🧐
- Proteomics / Proteogenomics 2: Database Search 🧐
- Proteomics / Library Generation for DIA Analysis 🧐
- Proteomics / Proteogenomics 3: Novel peptide analysis 🧐
- Proteomics / metaQuantome 3: Taxonomy 🧐
- Proteomics / Neoantigen 1a: Fusion-Database-Generation 🧐
- Proteomics / Neoantigen 2: Database merge and FragPipe discovery 🧐
- Proteomics / Clinical Metaproteomics 2: Discovery 🧐
- Proteomics / Detection and quantitation of N-termini (degradomics) via N-TAILS 🧐
- Proteomics / Proteogenomics 1: Database Creation 🧐
- Proteomics / Neoantigen 5a: Predicting HLA Binding 🧐
- Proteomics / Clinical Metaproteomics 4: Quantitation 🧐
- Proteomics / Mass spectrometry imaging: Loading and exploring MSI data 🧐
- Proteomics / Protein FASTA Database Handling 🧐
- Proteomics / Label-free data analysis using MaxQuant 🧐
- Proteomics / Machine Learning Modeling of Anticancer Peptides 🧐
- Proteomics / Neoantigen 4: Variant Annotation 🧐
- Proteomics / Biomarker candidate identification 🧐
- Proteomics / MaxQuant and MSstats for the analysis of label-free data 🧐
- Proteomics / Neoantigen 3: PepQuery2 Verification 🧐
- Proteomics / Annotating a protein list identified by LC-MS/MS experiments 🧐
- Proteomics / DIA Analysis using OpenSwathWorkflow 🧐
- Proteomics / EncyclopeDIA 🧐
- Proteomics / Peptide and Protein ID using SearchGUI and PeptideShaker 🧐
- Proteomics / Peptide and Protein ID using OpenMS tools 🧐
- Proteomics / Clinical Metaproteomics 5: Data Interpretation 🧐
- Proteomics / Neoantigen 1b: Non-Reference-Database-Generation 🧐
- Proteomics / Multiomics data analysis using MultiGSEA 🧐
- Proteomics / Metaproteomics tutorial 🧐
- Proteomics / Clinical Metaproteomics 3: Verification 🧐
- Proteomics / Peptide and Protein Quantification via Stable Isotope Labelling (SIL) 🧐
- Proteomics / Peptide Library Data Analysis 🧐
- Proteomics / Label-free versus Labelled - How to Choose Your Quantitation Method 🧐
- Proteomics / MaxQuant and MSstats for the analysis of TMT data 🧐
- Proteomics / Secretome Prediction 🧐
- Proteomics / metaQuantome 2: Function 🧐
- Proteomics / metaQuantome 1: Data creation 🧐
- Proteomics / Clinical Metaproteomics 1: Database-Generation 🧐
- Visualisation / Genomic Data Visualisation with JBrowse ✍️ 🧐
- Visualisation / Visualisation with Circos ✍️ 🧐
- Visualisation / Ploting a Microbial Genome with Circos 🧐
- FAIR Data, Workflows, and Research / REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data 🧐
- FAIR Data, Workflows, and Research / FAIR data management solutions 🧐
- FAIR Data, Workflows, and Research / DataPLANT ARCs ✍️ 🧐
- FAIR Data, Workflows, and Research / FAIR Galaxy Training Material 🧐
- FAIR Data, Workflows, and Research / RO-Crate in Python 🧐
- FAIR Data, Workflows, and Research / RO-Crate - Introduction 🧐
- FAIR Data, Workflows, and Research / FAIR in a nutshell 🧐
- FAIR Data, Workflows, and Research / Sequence data submission to ENA 🧐
- FAIR Data, Workflows, and Research / FAIR Bioimage Metadata 🧐
- FAIR Data, Workflows, and Research / Introduction to Data Management Plan (DMP) for Peatland Research and PeatDataHub 🧐
- FAIR Data, Workflows, and Research / Data Registration 🧐
- FAIR Data, Workflows, and Research / Workflow Run RO-Crate Introduction 🧐
- FAIR Data, Workflows, and Research / Exporting Workflow Run RO-Crates from Galaxy 🧐
- FAIR Data, Workflows, and Research / Making clinical datasets FAIR 🧐
- FAIR Data, Workflows, and Research / Submitting workflows to LifeMonitor 🧐
- FAIR Data, Workflows, and Research / Best practices for workflows in GitHub repositories 🧐
- Teaching and Hosting Galaxy training / Teaching experiences 🧐
- Teaching and Hosting Galaxy training / Teaching online 🧐
- Teaching and Hosting Galaxy training / Galaxy Admin Training 🧐
- Teaching and Hosting Galaxy training / Motivation and Demotivation 🧐
- Teaching and Hosting Galaxy training / Hybrid training 🧐
- Teaching and Hosting Galaxy training / Organizing a workshop 🧐
- Teaching and Hosting Galaxy training / Asynchronous training 🧐
- Teaching and Hosting Galaxy training / Training Infrastructure as a Service 🧐
- Teaching and Hosting Galaxy training / Running a workshop as instructor ✍️ 🧐
- Teaching and Hosting Galaxy training / Set up a Galaxy for Training ✍️ 🧐
- Teaching and Hosting Galaxy training / Course Builder 🧐
- Teaching and Hosting Galaxy training / Live Coding is a Skill 🧐
- Teaching and Hosting Galaxy training / Train-the-Trainer: putting it all together 🧐
- Teaching and Hosting Galaxy training / Training techniques to enhance learner participation and engagement 🧐
- Teaching and Hosting Galaxy training / Assessment and feedback in training and teachings 🧐
- Digital Humanities / Introduction to Digital Humanities in Galaxy 🧐
- Digital Humanities / Text-Mining Differences in Chinese Newspaper Articles 🧐
- Digital Humanities / OpenRefine Tutorial for researching cultural data 🧐
- Sequence analysis / Mapping 🧐
- Sequence analysis / NCBI BLAST+ against the MAdLand 🧐
- Sequence analysis / Clean and manage Sanger sequences from raw files to aligned consensus 🧐
- Sequence analysis / Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants ✍️ 🧐
- Sequence analysis / Removal of human reads from SARS-CoV-2 sequencing data 🧐
- Sequence analysis / Quality Control 🧐
- Sequence analysis / Screening assembled genomes for contamination using NCBI FCS 🧐
- Sequence analysis / Quality and contamination control in bacterial isolate using Illumina MiSeq Data 🧐
- Introduction to Galaxy Analyses / Breve introducción a Galaxy - en español 🧐
- Ecology / Production d'indicateurs champs de bloc 🧐
Slides
- Synthetic Biology / Introduction to Synthetic Biology 🧐
- Development in Galaxy / Galaxy from a developer point of view 🧐
- Statistics and machine learning / Convolutional neural networks (CNN) Deep Learning - Part 3 🧐
- Statistics and machine learning / Feedforward neural networks (FNN) Deep Learning - Part 1 🧐
- Statistics and machine learning / Neural networks using Python 🧐
- Statistics and machine learning / Recurrent neural networks (RNN) Deep Learning - Part 2 🧐
- Statistics and machine learning / Deep Learning (without Generative Artificial Intelligence) using Python 🧐
- Statistics and machine learning / Regulations/standards for AI using DOME 🧐
- Galaxy Server administration / Galaxy on the Cloud 🧐
- Galaxy Server administration / Galaxy Tool Management with Ephemeris 🧐
- Galaxy Server administration / Galaxy Installation with Ansible 🧐
- Galaxy Server administration / Connecting Galaxy to a compute cluster 🧐
- Galaxy Server administration / Galaxy Monitoring with gxadmin 🧐
- Galaxy Server administration / Reference Data with CVMFS 🧐
- Galaxy Server administration / Galaxy Monitoring with Telegraf and Grafana 🧐
- Galaxy Server administration / User, Role, Group, Quota, and Authentication managment 🧐
- Galaxy Server administration / Storage Management 🧐
- Galaxy Server administration / Galaxy Interactive Tools 🧐
- Galaxy Server administration / Gearing towards production 🧐
- Galaxy Server administration / Storage Management ✍️ 🧐
- Galaxy Server administration / Server Maintenance: Cleanup, Backup, and Restoration 🧐
- Galaxy Server administration / Running Jobs on Remote Resources with Pulsar 🧐
- Galaxy Server administration / Ansible 🧐
- Galaxy Server administration / Docker and Galaxy 🧐
- Galaxy Server administration / uWSGI 🧐
- Galaxy Server administration / Terraform 🧐
- Galaxy Server administration / Galaxy from an administrator's point of view 🧐
- Galaxy Server administration / Galaxy Troubleshooting 🧐
- Galaxy Server administration / External Authentication 🧐
- Galaxy Server administration / Galactic Database 🧐
- Galaxy Server administration / Controlling Galaxy with systemd or Supervisor 🧐
- Galaxy Server administration / Galaxy Monitoring 🧐
- Galaxy Server administration / Server: Other 🧐
- Galaxy Server administration / Reference Genomes in Galaxy 🧐
- Galaxy Server administration / Advanced customisation of a Galaxy instance 🧐
- Galaxy Server administration / Empathy ✍️ 🧐
- Assembly / Genome assembly and assembly QC - Introduction short version 🧐
- Assembly / Deeper look into Genome Assembly algorithms 🧐
- Assembly / Genome assembly quality control. 🧐
- Assembly / An Introduction to Genome Assembly 🧐
- Assembly / De Bruijn Graph Assembly 🧐
- Assembly / Unicycler Assembly 🧐
- Assembly / Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads 🧐
- Assembly / An introduction to get started in genome assembly and annotation 🧐
- Genome Annotation / High Performance Computing for Pairwise Genome Comparison 🧐
- Genome Annotation / Introduction to Genome Annotation 🧐
- Genome Annotation / Refining Genome Annotations with Apollo 🧐
- Genome Annotation / Genome annotation with Prokka 🧐
- Using Galaxy and Managing your Data / Getting data into Galaxy ✍️ 🧐
- Using Galaxy and Managing your Data / Introduction to SRA Aligned Read Format and Cloud Metadata for SARS-CoV-2 🧐
- Using Galaxy and Managing your Data / Galaxy workflows in Dockstore 🧐
- Evolution / Phylogenetics - Back to Basics - Multiple Sequence Alignment 🧐
- Evolution / Phylogenetics - Back to Basics - Building Trees 🧐
- Evolution / Phylogenetics - Back to Basics - Phylogenetic Networks 🧐
- Evolution / Phylogenetics - Back to Basics - Estimating trees from alignments 🧐
- Evolution / Phylogenetics - Back to Basics - Terminology 🧐
- Evolution / Phylogenetics - Back to Basics - Introduction 🧐
- Metabolomics / Predicting EI+ mass spectra with QCxMS 🧐
- Metabolomics / Introduction to Metabolomics 🧐
- Metabolomics / Mass spectrometry: LC-MS preprocessing - advanced 🧐
- Microbiome / Introduction to Microbiome Analysis ✍️ 🧐
- Microbiome / Introduction to metatranscriptomics ✍️ 🧐
- Variant Analysis / Introduction to Variant analysis 🧐
- Transcriptomics / Introduction to Transcriptomics 🧐
- Transcriptomics / Visualization of RNA-Seq results with CummeRbund 🧐
- Transcriptomics / Network Analysis with Heinz 🧐
- Transcriptomics / Integrate and query local datasets and distant RDF data with AskOmics using Semantic Web technologies 🧐
- Foundations of Data Science / A brief history of modern biology 🧐
- Foundations of Data Science / Bioinformatics Data Types and Databases 🧐
- Contributing to the Galaxy Training Material / Contributing with GitHub via command-line 🧐
- Contributing to the Galaxy Training Material / Creating Slides ✍️ 🧐
- Contributing to the Galaxy Training Material / Overview of the Galaxy Training Material 🧐
- Epigenetics / Introduction to ATAC-Seq data analysis 🧐
- Epigenetics / Introduction to ChIP-Seq data analysis 🧐
- Epigenetics / EWAS Epigenome-Wide Association Studies Introduction 🧐
- Epigenetics / ChIP-seq data analysis 🧐
- Epigenetics / Introduction to DNA Methylation data analysis 🧐
-
Imaging
/
Nucleoli Segmentation
&
Feature Extraction
using CellProfiler 🧐 - Climate / The Pangeo ecosystem 🧐
- Climate / Pangeo ecosystem 101 for everyone 🧐
- Climate / Functionally Assembled Terrestrial Ecosystem Simulator (FATES) 🧐
- Climate / Introduction to climate data 🧐
- Single Cell / Plates, Batches, and Barcodes 🧐
- Single Cell / An introduction to scRNA-seq data analysis 🧐
- Single Cell / Automated Cell Annotation 🧐
- Single Cell / GO Enrichment Analysis on Single-Cell RNA-Seq Data 🧐
- Single Cell / Trajectory analysis 🧐
- Single Cell / Single-cell Formats and Resources 🧐
- Introduction to Galaxy Analyses / A Short Introduction to Galaxy ✍️ 🧐
- Introduction to Galaxy Analyses / Introduction to Galaxy ✍️ 🧐
- Introduction to Galaxy Analyses / Options for using Galaxy 🧐
- Development in Galaxy / Galaxy Interactive Environments ✍️ 🧐
- Development in Galaxy / Galaxy Code Architecture 🧐
- Development in Galaxy / Scripting Galaxy using the API and BioBlend 🧐
- Development in Galaxy / Visualizations: JavaScript Plugins ✍️ 🧐
- Development in Galaxy / Tool Shed: sharing Galaxy tools 🧐
- Development in Galaxy / Tool Dependencies and Containers 🧐
- Development in Galaxy / Prerequisites for building software/conda packages 🧐
- Development in Galaxy / Generic plugins ✍️ 🧐
- Development in Galaxy / Introduction to the ToolFactory tutorial. 🧐
- Development in Galaxy / Galaxy Webhooks 🧐
- Development in Galaxy / Tool Dependencies and Conda 🧐
- Development in Galaxy / Tool development and integration into Galaxy ✍️ 🧐
- Development in Galaxy / Galaxy Interactive Tours 🧐
- Proteomics / Introduction to proteomics, protein identification, quantification and statistical modelling 🧐
- Visualisation / JBrowse ✍️ 🧐
- Visualisation / Circos ✍️ 🧐
- Visualisation / Friends Don't Let Friends Make Bad Graphs 🧐
- Visualisation / Visualisations in Galaxy ✍️ 🧐
- FAIR Data, Workflows, and Research / Intro to DataPLANT ARCs ✍️
- Teaching and Hosting Galaxy training / Overview of the Galaxy Training Material for Instructors 🧐
- Teaching and Hosting Galaxy training / Workshop Kickoff ✍️ 🧐
- Sequence analysis / Mapping ✍️ 🧐
- Sequence analysis / Quality Control 🧐
- Single Cell / Introducción al análisis de datos de scRNA-seq 🧐
- Introduction to Galaxy Analyses / Una breve introducción a Galaxy ✍️ 🧐
- Single Cell / Una introducción al análisis de datos scRNA-seq 🧐
- Introduction to Galaxy Analyses / Una Breve Introducción a Galaxy ✍️ 🧐
FAQs
- Can I create multiple Galaxy accounts?
- How can I adapt this tutorial to my own data?
- How can I adapt this tutorial to my own data?
- Adding a custom database/build (dbkey)
- How can I do analysis X? - Getting help
- My jobs aren't running!
- Regular Expressions 101
- Results may vary
- Troubleshooting errors
- Define once, reference many times
- Adding a tag to a collection
- Creating a dataset collection
- Creating a paired collection
- Changing the datatype of a collection
- Converting the datatype of a collection
- Renaming a collection
- How do I find the Community Home pages?
- Thanks!
- How can I get started with contributing?
- How can I contribute in "advanced" mode?
- How can I give feedback?
- What can I do to help the project?
- How can I report mistakes or errors?
- How can I test an Interactive Tour?
- How can I create new content without dealing with git?
- Adding a tag
- Changing the datatype
- Changing database/build (dbkey)
- Converting the file format
- Creating a new file
- Detecting the datatype (file format)
- Importing data from a data library
- Importing data from remote files
- Importing via links
- Renaming a dataset
- Upload many files (>10) via FTP
- Compressed FASTQ files, (`*.gz`)
- FASTQ files: `fastq` vs `fastqsanger` vs ..
- Using the Window Manager to view multiple datasets
- Where can I read more about Quality Control of data?
- How many mules?
- Are there any upcoming events focused on Galaxy Training?
- What is Galaxy?
- Forking the GTN repository
- Updating the default branch from master to main
- Syncing your Fork of the GTN
- GTN ADR: Image Storage
- GTN ADR: Why Jekyll and not another Static Site Generator (SSG)
- GTN Architectural Decision Record Template
- Using tutorial mode and the Case Study suite
- What is this website?
- How can I advertise the training materials on my posters?
- What audiences are the tutorials for?
- How can I cite the GTN?
- Creating a GTN Event
- How is the content licensed?
- Creating a GTN News post
- Sustainability of the training-material and metadata
- Supporting Tutorial Mode (GTN-in-Galaxy) in a tutorial
- What are the tutorials for?
- Copy a dataset between histories
- Créer un nouvel history
- Creating a new history
- Renaming a history
- Searching your history
- Sharing your History
- Which icons are available to use in my tutorial?
- The input for a tool is not listed in the dropdown
- The input for a tool is not listed in the dropdown
- Install tools via the Admin UI
- What are the best practices for teaching with Galaxy?
- What Galaxy instance should I use for my training?
- How do I get help?
- Where do I start?
- Launch JupyterLab
- Launch RStudio
- Stop RStudio
- JBrowse is taking a long time to complete?
- How can I get help?
- Where do I start?
- Where can I run the hands-on tutorials?
- How do I use this material?
- Defining a Learning Pathway
- How do I find the Maintainer Home pages?
- Where can I read more about this analysis?
- Where can I read more about this analysis?
- MultiQC error for your FastQC reports?
- I cannot run client tests because yarn is not installed.
- Getting your API key
- Adding your recording to a tutorial or slide deck
- Recording a video tutorial
- Illumina MiSeq sequencing
- Nanopore sequencing
- What is a SNP?
- Where do I get more support?
- Contacting Galaxy Administrators
- Changing the tool version
- Organizing the tool panel
- Viewing tool logs (`stdout` and `stderr`)
- If a Tool is Missing
- Re-running a tool
- Selecting a dataset collection as input
- Select multiple datasets
- Multipile similar tools available
- How can I create a tutorial skeleton from a Galaxy workflow?
- Using tutorial mode
- Using IGV with Galaxy
- Add genome and annotations to IGV from Galaxy
- Add Mapped reads track to IGV from Galaxy
- What is a Learning Pathway?
- Creating a new workflow
- Opening the workflow editor
- Extracting a workflow from your history
- Hiding intermediate steps
- Importing a workflow
- Setting parameters at run-time
- Renaming workflow outputs
- Viewing a workflow report
- Running a workflow
Video Recordings
- Galaxy Server administration / Running Jobs on Remote Resources with Pulsar 💬
- Assembly / An Introduction to Genome Assembly 💬
- Microbiome / Introduction to Microbiome Analysis 💬 🗣
- Transcriptomics / Introduction to Transcriptomics 💬
- Contributing to the Galaxy Training Material / Creating Slides 💬
- Visualisation / Circos 💬
- Galaxy Server administration / Galaxy Installation with Ansible 💬
- Galaxy Server administration / Connecting Galaxy to a compute cluster 💬
- Galaxy Server administration / Galaxy Monitoring with Telegraf and Grafana 💬
- Galaxy Server administration / Data Libraries 💬 🗣
- Galaxy Server administration / Training Infrastructure as a Service (TIaaS) 💬
- Galaxy Server administration / Mapping Jobs to Destinations using TPV 💬
- Using Galaxy and Managing your Data / Workflow Reports 💬 🗣
- Using Galaxy and Managing your Data / Understanding Galaxy history system 💬 🗣
- Microbiome / 16S Microbial Analysis with mothur (short) 💬 🗣
- Microbiome / Metatranscriptomics analysis using microbiome RNA-seq data (short) 💬 🗣
- Microbiome / Metatranscriptomics analysis using microbiome RNA-seq data 💬 🗣
- Transcriptomics / RNA Seq Counts to Viz in R 💬
- Transcriptomics / Reference-based RNA-Seq data analysis 💬
- Contributing to the Galaxy Training Material / Preview the GTN website as you edit your training material 💬 🗣
- Introduction to Galaxy Analyses / Galaxy Basics for genomics 💬
- Visualisation / Visualisation with Circos 💬
- Sequence analysis / Mapping 💬
- Sequence analysis / Quality Control 💬
Events
- Admin Training @ GCC 2022: Online Training Day 🎪
- My External Training Event Title 🎪
- My Training Event Title 🎪
- Galaxy Training Academy 2025 🎪
- Galaxy Training Academy 2024 🎪
GitHub Activity
github Issues Reported
379 Merged Pull Requests
See all of the github Pull Requests and github Commits by Saskia Hiltemann.
-
[Actions] revert labeler to v4
-
[Events] time bugfix
-
Climate QCV: fix broken box
climate -
Update optimize-images.yml
template-and-tools -
[JSON-LD markup] remove obsolete terms
template-and-tools
Reviewed 1349 PRs
We love our community reviewing each other's work!
-
📖 OpenRefine Tutorial
template-and-toolsdigital-humanities -
Bump rexml from 3.3.9 to 3.4.2
template-and-toolsdependenciesruby -
Fix broken links for installation steps
fair -
Creation of a learning pathway for the creation of a sig and codex
template-and-tools -
GAT brno: add pauldg to instructors
template-and-tools
News

Next GTN CoFest May 20, 2021

New Feature: FAQs

New Tutorials: Genome assembly of a MRSA genome

¿Hablas español?: The first curated tutorial in Spanish!

Oh no, it changed! Quick, to the archive menu.

New Tutorial: GitPod for contributing to the GTN

New Tutorial: Data Manipulation

GTN Video Library 2.0: 107 hours of learning across 154 videos

GTN Video Library 2.0: 107 hours of learning across 154 videos

4th Mycobacterium tuberculosis complex NGS made easy


An Ode to Helena - from the 🥓Bacon Brigade

GTN is now integrated with WorkflowHub
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