Training

Visualisations in Galaxy

Friends Don't Let Friends Make Bad Graphs

Ploting a Microbial Genome with Circos

Visualisation with Circos

Working with Beacon V2: A Comprehensive Guide to Creating, Uploading, and Searching for Variants with Beacons

Querying the University of Bradford GDC Beacon Database for Copy Number Variants (CNVs)

Identification of somatic and germline variants from tumor and normal sample pairs

Mapping and molecular identification of phenotype-causing mutations

Trio Analysis using Synthetic Datasets from RD-Connect GPAP

Deciphering Virus Populations - Single Nucleotide Variants (SNVs) and Specificities in Baculovirus Isolates

Exome sequencing data analysis for diagnosing a genetic disease

Somatic Variant Discovery from WES Data Using Control-FREEC

Calling variants in diploid systems

Calling variants in non-diploid systems

Calling very rare variants

Introduction to Variant analysis

De novo transcriptome reconstruction with RNA-Seq

Pathway analysis with the MINERVA Platform

Reference-based RNA-Seq data analysis

Visualization of RNA-Seq results with Volcano Plot in R

RNA Seq Counts to Viz in R

RNA-seq Alignment with STAR

Reference-based RNAseq data analysis (long)

Introduction to Transcriptomics

RNA-Seq analysis with AskOmics Interactive Tool

Visualization of RNA-Seq results with CummeRbund

Network analysis with Heinz

1: RNA-Seq reads to counts

CLIP-Seq data analysis from pre-processing to motif detection

GO Enrichment Analysis

Visualization of RNA-Seq results with Volcano Plot

Small Non-coding RNA Clustering using BlockClust

3: RNA-seq genes to pathways

Visualization of RNA-Seq results with heatmap2

RNA-RNA interactome data analysis

Differential abundance testing of small RNAs

2: RNA-seq counts to genes

De novo transcriptome assembly, annotation, and differential expression analysis

RNA-Seq data analysis, clustering and visualisation tutorial

Genome-wide alternative splicing analysis

Teaching experiences

Teaching online

Galaxy Admin Training

Asynchronous training

Hybrid training

Live Coding is a Skill

Training Infrastructure as a Service

Course Builder

Running a workshop as an instructor

Organizing a workshop

Set up a Galaxy for Training

Workshop Kickoff

Overview of the Galaxy Training Material for Instructors

Generating theoretical possible pathways for the production of Lycopene in E.Coli using Retrosynthesis tools

Designing plasmids encoding predicted pathways by using the BASIC assembly method

Evaluating and ranking a set of pathways based on multiple metrics

Supervised Learning with Hyperdimensional Computing

Introduction to Machine Learning using R

Fine tune large protein model (ProtTrans) using HuggingFace

Introduction to deep learning

Train and Test a Deep learning image classifier with Galaxy-Ludwig

Identifing Survival Markers of Brain tumor with Flexynesis

PAPAA PI3K_OG: PanCancer Aberrant Pathway Activity Analysis

Deep Learning (Part 1) - Feedforward neural networks (FNN)

Text-mining with the SimText toolset

Classification in Machine Learning

Unsupervised Analysis of Bone Marrow Cells with Flexynesis

Prepare Data from CbioPortal for Flexynesis Integration

Deep Learning (Part 2) - Recurrent neural networks (RNN)

Deep Learning (Part 3) - Convolutional neural networks (CNN)

Galaxy Tabular Learner - Building a Model using Chowell clinical data

Regression in Machine Learning

Interval-Wise Testing for omics data

Gleam Multimodal Learner - Head and Neck cancer Recurrence Prediction with HANCOCK

Basics of machine learning

Modeling Breast Cancer Subtypes with Flexynesis

A Docker-based interactive Jupyterlab powered by GPU for artificial intelligence in Galaxy

Age prediction using machine learning

Image classification in Galaxy with fruit 360 dataset

GLEAM Image Learner - Validating Skin Lesion Classification on HAM10000

Clustering in Machine Learning

Machine learning: classification and regression

Automated Cell Annotation

Trajectory analysis

Bulk matrix to ESet | Creating the bulk RNA-seq dataset for deconvolution

Inferring single cell trajectories with Monocle3

Inferring single cell trajectories with Monocle3 (R)

Single-cell Formats and Resources

Batch Correction and Integration with Seurat or Scanpy

Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution

Inferring single cell trajectories with Scanpy

Inferring single cell trajectories with Scanpy (Python)

Plates, Batches, and Barcodes

Scanpy Parameter Iterator

Filter, plot, and explore single cell RNA-seq data with Seurat

Clustering 3K PBMCs with Seurat

Evaluating Reference Data for Bulk RNA Deconvolution

Filter, plot and explore single-cell RNA-seq data with Scanpy

Multi-sample batch correction with Harmony and SnapATAC2

Converting NCBI Data to the AnnData Format

Filter, plot and explore single-cell RNA-seq data with Scanpy (Python)

Combining single cell datasets after pre-processing

Comparing inferred cell compositions using MuSiC deconvolution

Removing the effects of the cell cycle

Single-cell ATAC-seq standard processing with SnapATAC2

Importing files from public atlases

Downstream Single-cell RNA analysis with RaceID

Clustering 3K PBMCs with Scanpy

Filter, plot, and explore single cell RNA-seq data with Seurat (R)

Understanding Barcodes

Generating a single cell matrix using Alevin and combining datasets (bash + R)

An introduction to scRNA-seq data analysis

Pre-processing of Single-Cell RNA Data

Pre-processing of 10X Single-Cell RNA Datasets

Pseudobulk Analysis with Decoupler and EdgeR

Pre-processing of 10X Single-Cell ATAC-seq Datasets

Generating a single cell matrix using Alevin

Single-cell quality control with scater

Converting between common single cell data formats

GO Enrichment Analysis on Single-Cell RNA-Seq Data

Bulk RNA Deconvolution with MuSiC

Primer and primer scheme design for pan-specific detection and sequencing of viral pathogens across genotypes

Quality and contamination control in bacterial isolate using Illumina MiSeq Data

Clean and manage Sanger sequences from raw files to aligned consensus

Quality Control

Mapping

Screening assembled genomes for contamination using NCBI FCS

Label-free versus Labelled - How to Choose Your Quantitation Method

Introduction to proteomics, protein identification, quantification and statistical modelling

Label-free data analysis using MaxQuant

Neoantigen 1b: Non-Reference-Database-Generation

Metaproteomics tutorial

MaxQuant and MSstats for the analysis of label-free data

Clinical Metaproteomics 3: Verification

Peptide and Protein Quantification via Stable Isotope Labelling (SIL)

Neoantigen 1a: Fusion-Database-Generation

Proteogenomics 2: Database Search

Clinical Metaproteomics 4: Quantitation

Biomarker candidate identification

DIA Analysis using OpenSwathWorkflow

Single Cell Proteomics data analysis with bioconductor-scp

Annotating a protein list identified by LC-MS/MS experiments

Clinical Metaproteomics 2: Discovery

Proteogenomics 1: Database Creation

metaQuantome 2: Function

Clinical Metaproteomics 5: Data Interpretation

Machine Learning Modeling of Anticancer Peptides

Neoantigen 5a: Predicting HLA Binding

Detection and quantitation of N-termini (degradomics) via N-TAILS

Mass spectrometry imaging: Loading and exploring MSI data

Clinical Metaproteomics 1: Database-Generation

Peptide and Protein ID using SearchGUI and PeptideShaker

Proteogenomics 3: Novel peptide analysis

Neoantigen 5b: IEDB binding Validated Neopeptides

MaxQuant and MSstats for the analysis of TMT data

Neoantigen 2: Database merge and FragPipe discovery

Library Generation for DIA Analysis

metaQuantome 1: Data creation

Multiomics data analysis using MultiGSEA

Peptide and Protein ID using OpenMS tools

Peptide Library Data Analysis

Secretome Prediction

Neoantigen 3: PepQuery2 Verification

Neoantigen 4: Variant Annotation

EncyclopeDIA

Protein FASTA Database Handling

metaQuantome 3: Taxonomy

Statistical analysis of DIA data

Analysis of plant scRNA-Seq Data with Scanpy

NCBI BLAST+ against the MAdLand

Whole transcriptome analysis of Arabidopsis thaliana

Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants

Avian influenza viral strain analysis from gene segment sequencing data

M. tuberculosis Variant Analysis

Pox virus genome analysis from tiled-amplicon sequencing data

16S Microbial Analysis with mothur (short)

16S Microbial Analysis with mothur (extended)

Indexing and profiling microbes with MetaSBT

Building and Annotating Metagenome-Assembled Genomes (MAGs) from Short Metagenomics Paired Reads

QIIME 2 Cancer Microbiome Intervention

QIIME 2 Moving Pictures

Building an amplicon sequence variant (ASV) table from 16S data using DADA2

Clinical Metaproteomics 3: Verification

Clinical Metaproteomics 4: Quantitation

Query an annotated mobile genetic element database to identify and annotate genetic elements (e.g. plasmids) in metagenomics data

Assembly of metagenomic sequencing data

Binning of metagenomic sequencing data

Remove contamination and host reads

Metatranscriptomics analysis using microbiome RNA-seq data (short)

Clinical Metaproteomics 2: Discovery

Identifying Mycorrhizal Fungi from ITS2 sequencing using LotuS2

Identification of the micro-organisms in a beer using Nanopore sequencing

Clinical Metaproteomics 5: Data Interpretation

Calculating α and β diversity from microbiome taxonomic data

16S Microbial analysis with Nanopore data

Clinical Metaproteomics 1: Database-Generation

Antibiotic resistance detection

Metatranscriptomics analysis using microbiome RNA-seq data

MGnify v5.0 Amplicon Pipeline

Taxonomic Profiling and Visualization of Metagenomic Data

Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition

Analyses of metagenomics data - The global picture

Introduction to Microbiome Analysis

Mass spectrometry: LC-MS data processing

Mass spectrometry: GC-MS analysis with the metaMS package

Mass spectrometry: LC-MS preprocessing with XCMS

Introduction to Metabolomics

Mass spectrometry imaging: Finding differential analytes

Predicting EI+ mass spectra with QCxMS

Mass spectrometry: GC-MS data processing (with XCMS, RAMClustR, RIAssigner, and matchms)

Molecular formula assignment and mass recalibration with MFAssignR package

Mass spectrometry imaging: Examining the spatial distribution of analytes

Mass spectrometry: LC-MS analysis

Finding the muon stopping site with pymuon-suite in Galaxy

Very Short Introductions: QC

Introduction to Galaxy as an RDM platform

Galaxy Basics for everyone

Galaxy Basics for genomics

A short introduction to Galaxy

IGV Introduction

Best Practices for Citing Galaxy

Upload data to Galaxy

Introduction to the Dataverse Integration in Galaxy

Options for using Galaxy

Introduction to Galaxy

How to reproduce published Galaxy analyses

Data Manipulation Olympics

NGS data logistics

Introduction to Genomics and Galaxy

From peaks to genes

Tracking of mitochondria and capturing mitoflashes

Training Custom YOLO Models for Segmentation of Bioimages

Quantification of electrophoresis gel bands using QuPath and Galaxy imaging tools

Parameter tuning and optimization - Evaluating nuclei segmentation with Galaxy

Execute a BiaPy workflow in Galaxy

Using BioImage.IO models for image analysis in Galaxy

Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines

Introduction to Image Analysis using Galaxy

Where to start with bioimage analysis in Galaxy

Object tracking using CellProfiler

End-to-End Tissue Microarray Image Analysis with Galaxy-ME

Content Tracking and Verification in Galaxy Workflows with ISCC-SUM

Analyse HeLa fluorescence siRNA screen

Segmentation of Anatomical Structures in Medical 3-D Images

Voronoi segmentation

Quantitative Analysis of Histological Staining Using Color Deconvolution

Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy

Nucleoli segmentation and feature extraction using CellProfiler

Genomic Data Visualisation with JBrowse2

Genomic Data Visualisation with JBrowse

Microbial Variant Calling

CRISPR screen analysis

Long non-coding RNAs (lncRNAs) annotation with FEELnc

Refining Genome Annotations with Apollo (eukaryotes)

Functional annotation of protein sequences

Genome annotation with Maker

Essential genes detection with Transposon insertion sequencing

Genome annotation with Maker (short)

Genome annotation with Funannotate

Comparative gene analysis in unannotated genomes

Bacterial genome quality control

Creating an Official Gene Set

Bacterial pangenomics

Dataset construction for bacterial comparative genomics

Genome Annotation

Introduction to Genome Annotation

Identification of AMR genes in an assembled bacterial genome

Refining Genome Annotations with Apollo (prokaryotes)

Comparison of two annotation tools - Helixer and Braker3

Masking repeats with RepeatMasker

Genome annotation with Braker3

Bacterial Genome Annotation

Genome annotation with Helixer

From small to large-scale genome comparison

Secondary metabolite discovery

Genome annotation with Prokka

Downloading and Deleting Data in Galaxy

JupyterLab in Galaxy

Annotate, prepare tests and publish Galaxy workflows in workflow registries

Extracting Workflows from Histories

Name tags for following complex histories

Importing (uploading) data from Onedata

Understanding Galaxy history system

Rule Based Uploader

Rule Based Uploader: Advanced

Use Jupyter notebooks in Galaxy

Exporting to Onedata remote

Getting started with Onedata distributed storage

Creating high resolution images of Galaxy Workflows

Group tags for complex experimental designs

Using dataset collections

RStudio in Galaxy

Searching Your History

Onedata user-owned storage

Getting data into Galaxy

Galaxy workflows in Dockstore

InterMine integration with Galaxy

Using Workflow Parameters

Creating, Editing and Importing Galaxy Workflows

Workflow Reports

FAIRification of an RNAseq dataset

Persistent Identifiers

REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data

Access

Submitting workflows to LifeMonitor

FAIR Bioimage Metadata

Best practices for workflows in GitHub repositories

FAIR Galaxy Training Material

Data Registration

Metadata

FAIR data management solutions

Exporting Workflow Run RO-Crates from Galaxy

RO-Crate in Python

DataPLANT ARCs

FAIR in a nutshell

Introduction to Data Management Plan (DMP) for Peatland Research and PeatDataHub

Workflow Run RO-Crate Introduction

FAIR and its Origins

Sequence data submission to ENA

RO-Crate - Introduction

Making clinical datasets FAIR

Uploading Data to Zenodo from Galaxy

Integrating InvenioRDM-compatible Repositories with Galaxy

An earth-system RO-Crate

Data management in Medicinal Chemistry

Phylogenetics - Back to Basics - Phylogenetic Networks

Phylogenetics - Back to Basics - Estimating trees from alignments

Phylogenetics - Back to Basics - Building Trees

Phylogenetics - Back to Basics - Multiple Sequence Alignment

Phylogenetics - Back to Basics - Terminology

Phylogenetic analysis for bacterial comparative genomics

Phylogenetics - Back to Basics - Introduction

Identifying tuberculosis transmission links: from SNPs to transmission clusters

Tree thinking for tuberculosis evolution and epidemiology

Phylogenetics - Back to basics

Introduction to ChIP-Seq data analysis

Introduction to DNA Methylation data analysis

Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)

Infinium Human Methylation BeadChip

CUT&RUN data analysis

Identification of the binding sites of the Estrogen receptor

ATAC-Seq data analysis

Hi-C analysis of Drosophila melanogaster cells using HiCExplorer

DNA Methylation data analysis

Formation of the Super-Structures on the Inactive X

Regulations/standards for AI using DOME

Optimizing DNA Sequences for Biological Functions using a DNA LLM

Generating Artificial Yeast DNA Sequences using a DNA LLM

Deep Learning (without Generative Artificial Intelligence) using Python

Predicting Mutation Impact with Zero-shot Learning using a pretrained DNA LLM

Neural networks using Python

Fine-tuning a LLM for DNA Sequence Classification

Foundational Aspects of Machine Learning using Python

Pretraining a Large Language Model (LLM) from Scratch on DNA Sequences

Training techniques to enhance learner participation and engagement

Assessment and feedback in training and teachings

Motivation and Demotivation

Train-the-Trainer: putting it all together

Object detection with YOLO

Cleaning GBIF data using OpenRefine

Visualize EBV cube data with Panoply netCDF viewer

QGIS Web Feature Services

Audio data annotation with NEAL (Nature + Energy Audio labeler)

Biodiversity data exploration

Taxonomic Analysis of eDNA

Data submission using ENA upload Tool

Metabarcoding/eDNA through Obitools

Visualization of Climate Data using NetCDF xarray Map Plotting

Ecoregionalization workflow tutorial

Regional GAM

Marine Omics identifying biosynthetic gene clusters

Species distribution modeling

SAM3 – AI-based Semantic Segmentation of marine biodiversity Images and Videos

Compute and analyze biodiversity metrics with PAMPA toolsuite

Life Traits Ecoregionalization workflow

Obis marine indicators

Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities

Cleaning GBIF data for the use in Ecology

Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS

Preparing genomic data for phylogeny reconstruction

From NDVI data with OpenEO to time series visualisation with Holoviews

Checking expected species and contamination in bacterial isolate

Phylodiversity analysis quick tutorial

RAD-Seq to construct genetic maps

RAD-Seq de-novo data analysis

Champs blocs indicators

Sentinel 2 biodiversity

RAD-Seq Reference-based data analysis

OpenRefine Tutorial for researching cultural data

Introduction to Digital Humanities in Galaxy

Transcribing Audio and Video files with Automated Speech Recognition

Text-Mining Differences in Chinese Newspaper Articles

Contributing a New Feature to Galaxy Core

Data source integration

Galaxy Interactive Tools

Contributing to BioBlend as a developer

Debugging Galaxy

Setting up a dev Onedata instance

Adding and updating best practice metadata for Galaxy tools using the bio.tools registry

Creating Galaxy tools from Conda Through Deployment

Writing Automated Tests for Galaxy

ToolFactory: Generating Tools From More Complex Scripts

nb2workflow: Generating Galaxy Tools From Jupyter Notebooks

Architecture 11 - Galaxy Markdown Architecture

Tool development and integration into Galaxy

Architecture 04 - Galaxy Files and Directory Structure

Architecture 05 - Galaxy Web Frameworks

ToolFactory: Generating Tools From Simple Scripts

Architecture 15 - Galaxy Production Deployment

Galaxy Interactive Tours

Galaxy Webhooks

Tool Shed: sharing Galaxy tools

Architecture 16 - Galaxy Testing

Architecture 02 - Galaxy Project Management and Contribution

Architecture 06 - Dependency Injection in Galaxy

Architecture 12 - Galaxy Client Architecture

Prerequisites for building software/conda packages

Architecture 14 - Galaxy Startup Process

Architecture 03 - Galaxy Architecture Principles

Scripting Galaxy using the API and BioBlend

Architecture 08 - Galaxy Application Components: Models, Managers, and Services

Architecture 01 - Galaxy Ecosystem and Projects

JavaScript plugins

Architecture 10 - Galaxy File Sources Architecture

Generic plugins

Galaxy Interactive Environments

Tool Dependencies and Containers

Architecture 07 - Galaxy Task Management with Celery

Architecture 09 - Galaxy Plugin Architecture

Architecture 13 - Galaxy Dependencies Management

Tool Dependencies and Conda

Python - Multiprocessing

Python - Coding Style

Python - Subprocess

Python - Globbing

Python - Type annotations

Python - Testing

Python - Argparse

Virtual Environments For Software Development

Conda Environments For Software Development

Python - Introductory Graduation

Python - Try & Except

Versioning your code and data with git

Python - Files & CSV

Data manipulation with Pandas

Python - Loops

Python - Flow Control

Introduction to sequencing with Python (part four)

Data Manipulation Olympics - JQ

Python - Lists & Strings & Dictionaries

Introduction to sequencing with Python (part three)

Introduction to sequencing with Python (part two)

Python - Basic Types & Type Conversion

Plotting in Python

Data Manipulation Olympics - SQL

dplyr & tidyverse for data processing

Advanced Python

Data visualisation Olympics - Visualization in R

Advanced R in Galaxy

Python - Functions

Introduction to sequencing with Python (part one)

Basics of using Git from the Command Line

Advanced CLI in Galaxy

Introduction to Python

Python - Math

SQL Educational Game - Murder Mystery

SQL with Python

CLI basics

Make & Snakemake

SQL with R

Introduction to SQL

R basics in Galaxy

Version Control with Git

Python - Warm-up for statistics and machine learning

CLI Educational Game - Bashcrawl

Advanced SQL

Variant Calling Workflow

One protein along the UniProt page

A (very) brief history of genomics

Learning about one gene across biological resources and formats

Data Manipulation Olympics

SARS-CoV-2 Viral Sample Alignment and Variant Visualization

SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis

Automating Galaxy workflows using the command line

Submitting sequence data to ENA

Removal of human reads from SARS-CoV-2 sequencing data

Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data

From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis

Updating tool versions in a tutorial

Creating Slides

Creating content in Markdown

FAIR Galaxy Training Material

Single Cell Publication - Data Plotting

Single Cell Publication - Data Analysis

Creating a new tutorial

Preview the GTN website as you edit your training material

Generating PDF artefacts of the website

Contributing with GitHub via its interface

Adding Quizzes to your Tutorial

FAIR-by-Design methodology

Creating Interactive Galaxy Tours

GTN Metadata

Teaching Python

Principles of learning and how they apply to training and teaching

Updating diffs in admin training

Tools, Data, and Workflows for tutorials

Including a new topic

Design and plan session, course, materials

Adding auto-generated video to your slides

Overview of the Galaxy Training Material

Contributing to the Galaxy Training Network with GitHub

Setting up molecular systems

Protein target prediction of a bioactive ligand with Align-it and ePharmaLib

Running molecular dynamics simulations using NAMD

Virtual screening of the SARS-CoV-2 main protease with rxDock and pose scoring

Running molecular dynamics simulations using GROMACS

Data management in Medicinal Chemistry

Protein-ligand docking

Analysis of molecular dynamics simulations

High Throughput Molecular Dynamics and Analysis

Creating a Special Interest Group

Creation of resources listing all the tools and their metadata relevant to your community

Creation of a Galaxy tutorial table for your community

Creating community content

Creation of resources listing Galaxy workflow for your community

Make your tools available on your subdomain

Creation of the labs in the different Galaxy instances for your community

What's a Special Interest Group?

Functionally Assembled Terrestrial Ecosystem Simulator (FATES) with Galaxy Climate JupyterLab

Collaboration with JupyterGIS

Getting your hands-on earth data

Ocean Data View (ODV)

Visualize Climate data with Panoply netCDF viewer

Introduction to climate data

Nitrate DMQC for autonomous platforms such as Argo floats

Functionally Assembled Terrestrial Ecosystem Simulator (FATES)

Pangeo ecosystem 101 for everyone - Introduction to Xarray Galaxy Tools

Getting your hands-on climate data

Sentinel 5P data visualisation

Analyse Argo data

Ocean's variables study

Pangeo Notebook in Galaxy - Introduction to Xarray

Deeper look into Genome Assembly algorithms

Genome assembly and assembly QC - Introduction short version

An introduction to get started in genome assembly and annotation

Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads

Genome Assembly Quality Control

Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data

Genome assembly using PacBio data

Assembly of metagenomic sequencing data

Hybrid genome assembly - Nanopore and Illumina

Decontamination of a genome assembly

Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step

ERGA post-assembly QC

Chloroplast genome assembly

Unicycler Assembly

Making sense of a newly assembled genome

Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)

De Bruijn Graph Assembly

Assembly of the mitochondrial genome from PacBio HiFi reads

Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data

Large genome assembly and polishing

An Introduction to Genome Assembly

BioImage Model Zoo: Advanced models in one-click

Welcome to the BioImage Model Zoo

Contribute to the BioImage.IO models

Deploying a compute cluster in OpenStack via Terraform

Deploying Wireguard for private mesh networking

Deploying Tailscale/Headscale for private mesh networking

Pulsar usage on SURF Research Cloud

Galaxy usage on SURF Research Cloud

Managing Galaxy on Kubernetes

Galaxy Installation on Kubernetes

Upgrading Galaxy

Create a subdomain for your community on UseGalaxy.eu

Configuring the Onedata connectors (remotes, Object Store, BYOS, BYOD)

Adding file-sources to Galaxy

Customizing the look of Galaxy (Manual)

Use Apptainer containers for running Galaxy jobs

Monitoring Galaxy and Pulsar with Sentry

Reference Data with CVMFS without Ansible

How I learned to stop worrying and love the systemd

Galaxy Monitoring with Reports

Deploying a Beacon v1 in Galaxy

Training Infrastructure as a Service (TIaaS)

Automation with Jenkins

Customizing the look of Galaxy

Galaxy Database schema

Enable upload via FTP

Mapping Jobs to Destinations using TPV

Alternative Celery Deployment for Galaxy

Performant Uploads with TUS

Galaxy Monitoring with gxadmin

Reference Data with CVMFS

Data Libraries

Distributed Object Storage

External Authentication

Galactic Database

Galaxy Interactive Tools

Galaxy Troubleshooting

Connecting Galaxy to a compute cluster

Galaxy Tool Management with Ephemeris

Galaxy from an administrator's point of view

Galaxy Monitoring with Telegraf and Grafana

User, Role, Group, Quota, and Authentication managment

Gearing towards production

Server Maintenance: Cleanup, Backup, and Restoration

Setting up Celery Workers for Galaxy

Running Jobs on Remote Resources with Pulsar

Docker and Galaxy

Galaxy Installation with Ansible

Advanced customisation of a Galaxy instance

Empathy

Galaxy Monitoring

Ansible