Galaxy Workshop

Michael Schatz, Anton Nekrutenko, Delphine Lariviere, Mentewab Ayalew, Skyy Lewis, Nonie Shuford, Michelle Savage

Galaxy Logo

Agenda

Intro to Galaxy
Michael Schatz, Anton Nekrutenko
Genome Assembly
Delphine Lariviere
Microbiome Research
Mentewab Ayalew, Skyy Lewis, Nonie Shuford
Machine Learning
Michelle Savage

Galaxy is a Universe

Galaxy Architecture

Galaxy is free, it is powerful and it scales!

Analyze your genomic, metagenomic, proteomic, metabolomic data in one place.

750,000
jobs per month
400,000+
registered users
1,500
concurrent users
$2,000,000+
free compute / year
10,000+
analysis tools
22,000+
citations

Galaxy = 1,000s of tools

Galaxy serves thousands of open-source analysis tools and is tightly integrated with BioConda and BioContainers communities

11,699
BioConda packages
30,722
CondaForge packages
12,333
BioContainers
10,676
Galaxy wrappers

Galaxy = 1,000s of tools

All tools have a consistent interface

Run a tool in Galaxy

Galaxy = 100s of workflows

Community-curated, production-ready

Run a workflow in Galaxy

Galaxy = 100s of workflows

Community-curated, production-ready

Ways to use Galaxy

GUI, API, LLMs (soon!)

Ways to use Galaxy

Run programmatically

Against our infrastructure!

Run programmatically

Globally distributed

Use the one closer to you!

Globally distributed

Part of large initiatives

AnVIL
NHGRI cloud platform
BRC-Analytics
Pathogen bioinformatics
CFDE
Common Fund Data Ecosystem
VGP
Vertebrate Genomes Project

AnVIL

NHGRI's Analysis, Visualization, and Informatics Lab-Space

AnVIL

BRC Analytics

Pathogen bioinformatics powered by Galaxy

Browse All Assemblies

Subcategories

Click the visualization to explore available assemblies

CFDE Cloud Workspace

Tools for analyses of protected datasets

CFDE Cloud Workspace

VGP: Sequencing Vertebrate Diversity

600 assemblies and counting

Abramis brama Abramis brama
Acanthisitta chloris Acanthisitta chloris
Acanthopagrus latus Acanthopagrus latus
Acomys russatus Acomys russatus
Alca torda Alca torda
Amblyraja radiata Amblyraja radiata
Ammospiza caudacuta Ammospiza caudacuta
Anguilla anguilla Anguilla anguilla
Antennarius maculatus Antennarius maculatus
Apus apus Apus apus
Argentina silus Argentina silus
Ascidiella aspersa Ascidiella aspersa
Aythya ferina Aythya ferina
Barbus barbus Barbus barbus
Borostomias antarcticus Borostomias antarcticus
Bucephala clangula Bucephala clangula
Callithrix jacchus Callithrix jacchus
Candoia aspera Candoia aspera
Carcharodon carcharias Carcharodon carcharias
Cervus elaphus Cervus elaphus
Chelmon rostratus Chelmon rostratus
Chiroxiphia lanceolata Chiroxiphia lanceolata
Ciconia maguari Ciconia maguari
Cnephaeus nilssonii Cnephaeus nilssonii
Coregonus lavaretus Coregonus lavaretus
Cottoperca gobio Cottoperca gobio
Cynocephalus volans Cynocephalus volans
Dendropsophus ebraccatus Dendropsophus ebraccatus
Diceros bicornis Diceros bicornis
Dryobates pubescens Dryobates pubescens
Electrona antarctica Electrona antarctica
Elgaria multicarinata Elgaria multicarinata
Equus caballus Equus caballus
Erpetoichthys calabaricus Erpetoichthys calabaricus
Eubalaena glacialis Eubalaena glacialis
Falco biarmicus Falco biarmicus
Gadus morhua Gadus morhua
Gastrophryne carolinensis Gastrophryne carolinensis
Geotrypetes seraphini Geotrypetes seraphini
Gobius niger Gobius niger
Grus americana Grus americana
Harpia harpyja Harpia harpyja
Heptranchias perlo Heptranchias perlo
Hippopotamus amphibius Hippopotamus amphibius
Hydrolagus colliei Hydrolagus colliei
Hyperoodon ampullatus Hyperoodon ampullatus
Labrus bergylta Labrus bergylta
Lampetra fluviatilis Lampetra fluviatilis
Lemur catta Lemur catta
Leucopleurus acutus Leucopleurus acutus

Wide variety of training topics

https://training.galaxyproject.org

2026 Galaxy Community Conference (GCC2026)

June 22-24, 2026 | Clermont-Ferrand, France

GCC2026

Galaxy Training Academy 2026

May 18-22, 2026 | Global Online Event

GTA2026

Galaxy is a community!

Contributors from Galaxy, GTN, and Tools-IUC

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gxy.io/pag-2026

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PAG33 training link

https://usegalaxy.org/join-training/pag33/

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