Galaxy Platform Directory: Servers, Clouds, and Deployable Resources

125+ platforms to use Galaxy on

This directory lists platforms where you can use or deploy your own Galaxy Server with minimal effort.

  • Almost all of them are free to use (Commercial clouds are the exception)
  • Almost all of them are open to everyone (Academic clouds are the exception).
  • All of the resources can be used, either immediately, or shortly after getting an account.

These resources cover a wide spectrum of domains all across life sciences. There are resources for genomics (lots of them), metagenomics, transcriptomics, proteomics, drug discovery and even some outside biology like natural language processing (a couple of them), and social science.


UseGalaxy servers implement a common core set of tools and reference genomes, and are open to anyone to use. They also contain tools and genomes that are local to each server. Each is backed by significant computational resources and they are excellent places to get started with Galaxy, and to share and publish your results.

ResourceServerSummaryKeywords
UseGalaxy.euServerThe European UseGalaxy server. UseGalaxy
UseGalaxy.org (Main)ServerThe Galaxy Project free public server; biomedical research UseGalaxy
UseGalaxy.org.auServerThe Australian UseGalaxy server. UseGalaxy

You can check the status of all UseGalaxy resources here.

Complete listing of resources for using Galaxy.

ResourceServerCloudDeploy- ableSummaryKeywords
AB-OpenLabServer FROG stands for FingeRprinting Ontology of Genomic variations. FROG fingerprints have been devised to capture genomic variations at various levels. Tools
ABiMSServer Analysis and bioinformatics for Marine Science. Genomics
ABiMS-ToolsServer Hosts tools/resources developed at the Station Biologique de Roscoff in collaboration with ABiMS. Tools
AGEseq @ AspenDBServer This site provides a user-friendly interface for AGEseq (Analysis of Genome Editing by Sequencing) in a Galaxy instance. Tools
Amazon Web Services (AWS)Commercial Set up you own general purpose genomics server runing AWS using GVL and CloudMan. Genomics
ANASTASIAServer Automated Nucleotide Aminoacid Sequences Translational plAtform for Systemic Interpretation and Analysis Genomics
AnVILAcademic Commercial Run Galaxy inside the secure AnVIL environment on Google Cloud Platform. Genomics
APOSTLServer Automated Processing of SAINT Templated Layouts (APOSTL) is a freely available software suite and analysis pipeline for reproducible, interactive analysis of AP-MS data. Tools
ARGAServer Antibiotic Resistance Gene Analyzer Domain
ARGs-OAPServer Fast annotation and classification of antibiotic resistance gene-like sequences from metagenomic data. Domain
ARIAwebServer Automated NOE assignment and NMR structure calculation Domain
ARIESServer Analysis of genomic data in the field of public health and food safety, with the aim of deploying a comprehensive bioinformatics approach to the study of food-borne zoonoses and infectious diseases at the human and animal interface. Domain
ASaiMContainer Integrates tools specifically chosen for metagenomic and metatranscriptomic studies and hierarchically organized to orient user choice toward the best tool for a given task. Tools
ATACgraphContainer ATAC-seq for biologists with minimal bioinformatics knowledge to analyze chromatin accessibility Domain
BF2I-MAPServer Locally developed as well as standard tools are available on a 16-core server with 32GB memory, accessible to all users, and located in the BF2I lab. Tools
BioBixServer A general genomics server. Includes the PROTEOFORMER pipeline tools. Genomics
BioCiphers Lab GalaxyServer BCL Galaxy gives a user friendly interface for analysis tools developed by the BioCiphers Lab at the University of Pennsylvania. Tools
BioCompute Object GalaxyServer BioCompute Objects is a standard for communication of High-throughput Sequencing (HTS) analysis results, data set creation and curation, and bioinformatics verification protocols. Genomics
BioDivine ToolsetServer Systems biology tools implemented by the Sybila team. Tools
BioMaSServer Taxonomic studies of environmental microbial communities Tools
BiominaServer A general purpose Galaxy instance that includes most standard tools for DNA/RNA sequencing, plus extra tools for panel resequencing, variant annotation and some tools for Illumina SNParray analysis. Genomics
BIPAA (BioInformatics Platform for Agroecosystem Arthropods)Server Insect genomics (aphids, parasitoïd wasps, lepidopterans) Domain
BitLABServer Detailed analysis of metagenomes. Tools
BRIDGEServer Container Prepare, simulate and analyse and visualise molecular simulations, especially molecular dynamics and free energies. Domain
CAFUServer Container A Galaxy framework for exploring unmapped RNA-Seq data Domain
CBiB GalaxyServer A general purpose Galaxy instance that includes EMBOSS (a software analysis package for molecular biology) and fibronectin (diversity analysis of synthetic libraries of a Fibronectin domain). Genomics
CellOrganizer for GalaxyServer Create generative models of the spatial organization of cells from microscope images and automatically provide geometries for spatial simulations of cell processes and behaviors Tools
Center for Phage Technology (CPT)Server Phage biology and automated annotation. Domain
ChemFlowServer Chemometrics without programming: infrared spectrometry on a Galaxy platform. Domain
Chemical Annotation Retrieval Toolkit (CART)Server Retrieves annotations on biological effects of chemicals and determines which ones are enriched. Tools
ChemicalToolboxServer Container For processing, analysing and visualising chemical data, and performing molecular simulations. Domain
CIRM-CFBPServer Web based access to tools (SkIf, KI-S) of IRHS-EmerSys lab. Tools
Cistrome Analysis PipelineServer ChIP-chip/seq and gene expression data Domain
Climate Science WorkbenchServer A comprehensive set of analysis tools and consolidated workflows for climate analysis and visualisation Domain
CLIMBAcademic The CLIMB project (Cloud Infrastructure for Microbial Bioinformatics) develops and deploys a world leading cyber-infrastructure for microbial bioinformatics; providing free cloud-based compute, storage, and analysis tools for academic microbiologists in the UK. Genomics
CLIP-ExplorerServer The CLIP-Explorer is a webserver to process, analyse and visualise CLIP-Seq data. Domain
Codon HarmonizerServer Easily generate codon harmonized variants of gene sequences for heterologous expression Tools
Coloc-statsServer a unified web interface to perform co-localization analysis of genomic features Domain
CoralSNPServer Standard Tools for Acroporid Genotyping (STAG) Domain
CorGATServer Align complete assemblies of SARS-CoV-2 genomes wih the reference genomic sequence, to obtain a list of polymorphic positions and to annotate genetic variants. Domain
CoSSciServer Tools for solving Galton's problem in Comparative Research and complex network problems in Social Science. Domain
COVID-19Server A companion to our study describing the analysis of early COVID-19 data Domain
CRAVAT-PContainer A Docker image containing a fully-operational Galaxy instance with pre-installed demonstration material for CRAVAT-P. Tools
CropGalaxyServer Hosts tools for the RiceGalaxy, GOBii project, HTPG project and the Excellence in Breeding (EiB) platform, including genomic selection, marker selection, GWAS, imputation, file conversion, and cluster analysis. Domain
deepTSServer Container Explore transcriptional switches from pairwise, temporal, and population RNA-Seq using deepTS. Tools
DintorServer GWA and NGS tools and modules for functional annotation of genes and gene products Domain
epiGeECServer Compare user-provided epigenomic datasets with thousands of public datasets. Tools
Epigenomics GalaxyContainer Galaxy Docker image for epigenomics analysis Domain
Erasmus MCServer General purpose genomics analysis, featuring many standard tools plus many additional tools. Genomics
EWAS-GalaxyContainer Galaxy Docker image for population epigenetics data analysis Domain
FreeBioinfoServer Galaxy for metagenomic analysis. Domain
G-OnRampCommercial VM G-OnRamp provides a user-friendly, web-based platform for collaborative, end-to-end annotation of eukaryotic genomes using UCSC Assembly Hubs and JBrowse/Apollo genome browsers with evidence tracks derived from sequence alignments, ab initio gene predictors, RNA-Seq data, and repeat finders. Domain
GalaxEastServer Integrative 'omics data analysis Genomics
Galaxy AfricaServer Devoted to assisting researchers on the African continent accelerate their genomics research and analyses. Genomics
Galaxy basic sequence manipulationContainer Galaxy Docker repository for basic sequence data analysis. Domain
Galaxy BLAST+Container A complete and production ready Galaxy instance with installed BLAST+ tools. Domain
Galaxy DockerContainer The Galaxy Docker Image is an easy distributable full-fledged Galaxy installation, that can be used for testing, teaching and presenting new tools and features. Genomics
Galaxy Exome-SeqContainer Galaxy Docker repository for Exome sequencing data analysis Domain
Galaxy for EcologyServer A web platform to get, process, analyze and visualize ecological data Domain
Galaxy Genome Annotation (GGA)Server Container Galaxy for genome annotation Domain
Galaxy ImagingServer Container Galaxy Docker repository for image analysis Domain
Galaxy IndiaServer This is the Indian galaxy server, Welcome Home! Genomics
Galaxy Integrated Omics (GIO)Server Proteomics Informed by Transcriptomics (PIT) methodology, and selection of surrogate peptides for targeted proteomics. Domain
Galaxy TestServer Beta version of Galaxy Main Genomics
Galaxy Workbench for Mass Spectrometry ImagingContainer Galaxy Docker image for mass spec imaging Domain
Galaxy-PServer Galaxy-P is a multiple 'omics' data analysis platform with particular emphasis on mass spectrometry based proteomics. Galaxy-P is developed at the University of Minnesota, deployed at the Minnesota Supercomputing Institute. Domain
Galaxy-SynBioCADServer Synthetic biology and metabolic engineering Domain
Galaxy@GenOuestServer A general purpose Galaxy server Includes tools developped by Dyliss and GenScale bioinformatics research teams in Rennes, France. Genomics
Galaxy@PasteurServer General purpose genomics analysis server. Genomics
Galaxy@PRABIServer Includes bioinformatics tools developed by the research teams working in the perimeter of the PRABI core facility, including kissplice/kissDE, TETools, SEX-DETector, and priam. Genomics
GalaxyTrakrServer Supporting food-borne pathogen research Domain
GASLINIServer Supports PIPE-T, a tool for Reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) analysis. Tools
GCAC : Galaxy for Compound Activity ClassificationServer VM GCAC is a web enabled platform for predictive model building using R and caret package for virtual screening. Tools
GenAPAcademic All Canadian researchers are eligible for a GenAP account. International researchers that have a Canadian collaborator can also be sponsored and become eligible to a GenAP account as well. Genomics
GeneLabServer NASA GeneLab is a comprehensive space-related omics database in which users can upload, download, share, store, and analyze spaceflight and corresponding model organism data. Genomics
Genomic HyperbrowserServer Statistical methodology and computing power to handle a variety of biological inquires on genomic datasets Domain
GigaGalaxyServer GigaGalaxy hosts tools and data analyses from papers published in *GigaScience*. Genomics
Globus GenomicsAcademic Commercial Globus Genomics provides hardened high-performance Galaxy servers running with Globus on AWS. Genomics
GraphClustServer Container GraphClust2 is a workflow for scalable clustering of RNAs based on sequence and secondary structures feature. GraphClust2 is implemented within the Galaxy framework and consists a set of integrated Galaxy tools and flavors of the linear-time clustering workflow. Tools
GrAPPAServer GrAPPA is a web-based interface constructed on the Galaxy framework for graph theoretical tools. It contains novel combinatorial methods integrated into a complete microarray analysis toolchain, from uploading raw high-throughput data to visualization of results. Domain
Halogen BondingServer Visualize halogen bond contacts in the protein binding site. Analyze a protein binding site for halogen bonding hotspots. Evaluate halogen contacts with the protein backbone using the scoring function XBScore. Tools
Hardwood GenomicsServer A simplified, workflow-centic interface to Galaxy, focused on genomics data from hardwood trees. Domain
HiCExplorerServer Tools to process and visualize chromosome conformation. Domain
Human Cell AtlasServer Tools and workflows for the analysis of Single Cell RNA-Seq data. It includes a module that connects to the Matrix Service API of the Human Cell Atlas’s Data Coordination Platform that enables retrieval of gene expression matrices from any data sets in the Human Cell Atlas. Domain
Huttenhower LabServer metagenomic and functional genomic analyses, intended for research and academic use Domain
HyPhy HIV NGS ToolsServer Tools for HIV sequencing analysis. Domain
IBERS @ AberystwythServer Software, tools and pages written by IBERS researchers for release to the wider community. Tools
IDENAPServer Inter-Domain Ecological Network Analysis Pipeline Domain
ImmPort GalaxyServer Flow Cytometry Analysis. Domain
immuneMLServer Machine learning-based analysis and classification of adaptive immune receptors and repertoires (AIRR). Domain
InteractoMIXServer A one-stop resource offering a wide range of computational analyses from proteome-wide interactomes to structure of protein complexes Domain
IPK Galaxy Blast SuiteServer Part of the IPK Crop Analysis Tools Suite (CATS). Offers access to genomic references published by IPK and collaborative projects Domain
JetstreamAcademic Jetstream is part of XSEDE, a "collection of integrated advanced digital resources and services" and is funded by NSF. Genomics
Langille LabServer Prediction of the unobserved character states in a community of organisms from phylogenetic information. Tools
LaniakeaAcademic Laniakea provides the possibility to automate the creation of Galaxy-based virtualized environments through an easy setup procedure, providing an on-demand workspace ready to be used by life scientists and bioinformaticians, with built-in storage encryption for user data. Genomics
LAPPS GridServer An open, interoperable web service platform for natural language processing (NLP) research and development. Domain
Lebanese University GalaxyServer Includes the SpCLUST tool set for fast and reliable clustering of potentially divergent biological sequences Tools
LifeportalServer a Galaxy instance to satisfy the computational needs of the Norwegian research community in life sciences but also of any other user willing to use the service. Genomics
LiSIsServer A platform for Virtual Screening. Tools
Machine Learning WorkbenchServer A comprehensive set of data preprocessing, machine learning, deep learning and visualisation tools, consolidated workflows for end-to-end machine learning analysis and training materials to showcase the usage of these tools. Domain
Majewski LabServer Detection of recurrent Allelic Imbalance in tumors using whole Exome sequencing data. Tools
Mandoiu LabServer A customized installation of the Galaxy framework deploying bioinformatic tools and pipelines developed in the Mandoiu Lab at the University of Connecticut for high-throughput sequencing and immunogenomics data analysis Tools
MaREA4GalaxyServer Metabolic Reaction Enrichment Analysis and visualization of RNA-seq data Tools
Martin Luther U. Halle-WittenbergServer Provides implementations of GeMoMa, InMoDe, CRISPRer, TALgetter, TALgetterLong, TALENoffer, and Dimont Tools
MetabolomicsServer A community driven metabolomics Galaxy service Domain
MetaCentrumAcademic MetaCentrum regional virtual organization of the Czech National Grid Infrastructure (NGI) and is accessible to employees and students of research and academic organizations of the Czech Republic and for scientific purposes only. Genomics
MetagenomicsServer a webserver to process, analyse and visualize Metagenomic and Microbiota data in general. Domain
Metaproteomics GatewayServer Metaproteomics gateway providing access to documentation and other instructional materials, and an opportunity for hands-on training using example datasets and optimized metaproteomics workflows Domain
MigaleServer A general purpose genomics server with an emphasis on metagenomics, including FROGS and several Migale developed tools. Genomics
MiModD NacreousMapServer NacreousMap mapping/plotting tool of MiModD for users of MiModD who do not want to install the required dependencies (R and rpy2) for graphical output from this tool on their local system. Tools
MISSISSIPPIServer Support for analyses of RNA and small RNA sequencing datasets as well as for epigenetics or metagenomics studies. Domain
Molecular Property Diagnostic Suite - Diabetes Mellitus Portal (MPDSDM)Server A disease-specific open source web portal for Diabetes Mellitus. Domain
Molecular Property Diagnostic Suite - Tuberculosis (MPDSTB)Server A disease-specific web portal for Tuberculosis for drug discovery and development. Domain
NanoGalaxyServer a webserver to process, analyse and visualize Oxford Nanopore Technologies (ONT) data and similar long-reads technologies. Domain
Nectar CloudAcademic Set up a Galaxy server on Australia's Nectar research cloud. Genomics
NetworkAnalystServer For mapping and quantification of raw RNA-seq data Domain
NG-TaxServer Container A Semantic Framework for High-throughput Marker Gene (Amplicon) Analysis Tools
NGPhylogeny.frServer Container Robust phylogenetic analysis for everyone. Domain
OqtansServer Customized Galaxy, extended with machine learning based tools for sequence and tiling array data analysis. Domain
OrioneServer A Galaxy based web server for microbiology. Orione includes all post mapping or assembling steps from scaffolding to complete annotation pipelines. Domain
OSDDlinux LiveGalaxyServer Drug discovery Domain
OsirisServer Phylogenetics Tools
PalfinderServer Microsatellite development. Tools
PepSimiliServer Integrated workflow tool for mapping of massive peptide repertoires on whole proteomes and delivering streamlined, systems-level biological interpretation. Tools
PhagePromotorServer Predict promoter sequences in phage genomes, using machine learning models. Tools
PhenoMeNalAcademic Commercial Large scale computing for medical informatics Domain
PIAServer Phylogenetics and gene interaction Tools
PiRATE: a Pipeline to Retrieve and Annotate Transposable ElementsVM Detect, classify and annotate TEs of non-model organisms. Tools
Plant Anaylsis WorkbenchServer A community driven plant data analsys Galaxy service Domain
PlantGenIEServer Plant Genome Integrative Explorer Galaxy instance Domain
PreSTIGEServer Predicting Specific Tissue Interactions of Genes and Enhancers Tools
Proteogenomics GatewayServer Provides access to documentation and other instructional materials, and an opportunity for hands-on training using example datasets and optimized proteogenomics workflows. The main goal of this server is to provide documentation to facilitate training and mastery of these software and workflows. Domain
ProteoREServer ProteoRE (Proteomics Research Environment) Domain
ProtologgerServer All-in-one genome description tool, aimed at simplifying gathering the data required for writing protologues. This includes providing taxonomic, functional and ecological insights. Tools
q2GalaxyContainer QIIME 2 Galaxy Docker image. Tools
QuanTPContainer A Docker image containing a fully-operational Galaxy instance with pre-installed QuanTP tools. Tools
RepeatExplorerServer Graph-based clustering and characterization of repetitive sequences, and detection of transposable element protein coding domains. Domain
RiboGalaxyServer Tools for the analysis and visualization of ribo-seq data obtained with the ribosome profiling technique. Domain
Rice GalaxyServer Tools for designing single-nucleotide polymorphism assays, analyzing genome-wide association studies, population diversity, rice−bacterial pathogen diagnostics, and a suite of published genomic prediction methods. Domain
RNA Modification CallingContainer Galaxy Docker image for RNA analysis and modification calling Tools
RNA WorkbenchServer Container more than 50 bioinformatics tools dedicated to different research areas of RNA biology, including RNA structure analysis, RNA alignment, RNA annotation, RNA-protein interaction, ribosome profiling, RNA-Seq analysis, and RNA target prediction. Domain
SARS-CoV-2 ENA SubmissionContainer Galaxy Docker image for submitting SARS-CoV-2 data to ENA Tools
SciensanoServer General purpose Galaxy server optimized for microbiological genomics applications of interest for public health. Genomics
SHAMANServer A user-friendly website for metataxonomic analysis from raw reads to statistical analysis Domain
Shapiro LabVM RNA structure and design tools including RNA2D3D and StructureLab Tools
Single Cell Omics workbenchServer The Single Cell Omics workbench is a comprehensive set of analysis tools and consolidated workflows Domain
SNIC Science Cloud (SSC)Academic A national-scale cloud infrastructure for Swedish Academia Genomics
Street ScienceServer a Galaxy dedicated for the Street Science Community Genomics
TGMServer The TGM pipeline is a workflow combining tranSMART server, Galaxy Server and MINERVA platform to enable visually-aided exploration, analysis and interpretation of high-throughput translational medicine data. Domain
TreeGenesServer TreeGenes integrates genotype, phenotype, and environmental data that can be processed for association mapping and landscape genomics, with a focus on forest trees. This functionality is provided by Tripal Galaxy, a module for Tripal that provides seamless support for running Galaxy workflows directly in the site. Users can analyze data provided by TreeGenes or their own. Domain
UseGalaxy.beServer General purpose genomics Galaxy server Genomics
UseGalaxy.euServer The European UseGalaxy server. UseGalaxy
UseGalaxy.frServer General purpose genomics Galaxy server Genomics
UseGalaxy.noServer A central, joint & free Galaxy instance for Norway-based researchers and their collaborators, with ~2000 bioinformatics tools, 200GB short-term storage and project storage on nels.bioinfo.no. Genomics
UseGalaxy.org (Main)Server The Galaxy Project free public server; biomedical research UseGalaxy
UseGalaxy.org.auServer The Australian UseGalaxy server. UseGalaxy
USMI Galaxy DemonstratorServer This Galaxy implementation is meant to demonstrate integration of microbial domain Biological Resource Center (mBRC) catalogues into the bioinformatics data integration environment. Tools
VEuPathDB GalaxyAcademic A free, interactive, web-based platform for large-scale data analysis focused on eukaryotic pathogens. Merges the former VectorBase and EuPathDB servers. Domain
Vinther LabServer RNA structure-probing data analysis to improve the prediction of RNA secondary and tertiary structure and allow structural changes to be identified and investigated. Tools
VINYL (Variant prIoritizatioN bY survivaL analysis)Server A flexible and fully automated system for the functional annotation and prioritization of genetic variants. Tools
Viral Variant Visualizer (VVV)Server Determine the composition of a viral population Tools
VirAmpServer VirAmp is a web-based semi-de novo fast virus genome assembly pipeline designed for extremely high coverage NGS data. Domain
VirologyServer A comprehensive set of analysis tools and consolidated workflows for virology work, including SARS-CoV-2. Domain
Workflow4MetabolomicsServer Container A collaborative portal dedicated to metabolomics data processing, analysis and annotation. Domain
wQAPServer QAP is an open source software that can be used to analyze virus quasispecies using CBS, NGS and TGS data. wQAP (web QAP), is the online version of QAP. Tools

Public Servers

Public Servers are acccessible to (at least) any academic researcher in the world. Some require you to create/request an account, aand they may have restrictive quotas, but often, to use these, just go the website and start running analyses. These are free to use.

The folks are Freiburg have put together a public Galaxy server dashboard to track the status and some of the supported features of the servers listed here. See the blog post for more info.

ResourceLinkSummaryKeywords
AB-OpenLabServerFROG stands for FingeRprinting Ontology of Genomic variations. FROG fingerprints have been devised to capture genomic variations at various levels. Tools
ABiMSServerAnalysis and bioinformatics for Marine Science. Genomics
ABiMS-ToolsServerHosts tools/resources developed at the Station Biologique de Roscoff in collaboration with ABiMS. Tools
AGEseq @ AspenDBServerThis site provides a user-friendly interface for AGEseq (Analysis of Genome Editing by Sequencing) in a Galaxy instance. Tools
ANASTASIAServerAutomated Nucleotide Aminoacid Sequences Translational plAtform for Systemic Interpretation and Analysis Genomics
APOSTLServerAutomated Processing of SAINT Templated Layouts (APOSTL) is a freely available software suite and analysis pipeline for reproducible, interactive analysis of AP-MS data. Tools
ARGAServerAntibiotic Resistance Gene Analyzer Domain
ARGs-OAPServerFast annotation and classification of antibiotic resistance gene-like sequences from metagenomic data. Domain
ARIAwebServerAutomated NOE assignment and NMR structure calculation Domain
ARIESServerAnalysis of genomic data in the field of public health and food safety, with the aim of deploying a comprehensive bioinformatics approach to the study of food-borne zoonoses and infectious diseases at the human and animal interface. Domain
BF2I-MAPServerLocally developed as well as standard tools are available on a 16-core server with 32GB memory, accessible to all users, and located in the BF2I lab. Tools
BioBixServerA general genomics server. Includes the PROTEOFORMER pipeline tools. Genomics
BioCiphers Lab GalaxyServerBCL Galaxy gives a user friendly interface for analysis tools developed by the BioCiphers Lab at the University of Pennsylvania. Tools
BioCompute Object GalaxyServerBioCompute Objects is a standard for communication of High-throughput Sequencing (HTS) analysis results, data set creation and curation, and bioinformatics verification protocols. Genomics
BioDivine ToolsetServerSystems biology tools implemented by the Sybila team. Tools
BioMaSServerTaxonomic studies of environmental microbial communities Tools
BiominaServerA general purpose Galaxy instance that includes most standard tools for DNA/RNA sequencing, plus extra tools for panel resequencing, variant annotation and some tools for Illumina SNParray analysis. Genomics
BIPAA (BioInformatics Platform for Agroecosystem Arthropods)ServerInsect genomics (aphids, parasitoïd wasps, lepidopterans) Domain
BitLABServerDetailed analysis of metagenomes. Tools
BRIDGEServerPrepare, simulate and analyse and visualise molecular simulations, especially molecular dynamics and free energies. Domain
CAFUServerA Galaxy framework for exploring unmapped RNA-Seq data Domain
CBiB GalaxyServerA general purpose Galaxy instance that includes EMBOSS (a software analysis package for molecular biology) and fibronectin (diversity analysis of synthetic libraries of a Fibronectin domain). Genomics
CellOrganizer for GalaxyServerCreate generative models of the spatial organization of cells from microscope images and automatically provide geometries for spatial simulations of cell processes and behaviors Tools
Center for Phage Technology (CPT)ServerPhage biology and automated annotation. Domain
ChemFlowServerChemometrics without programming: infrared spectrometry on a Galaxy platform. Domain
Chemical Annotation Retrieval Toolkit (CART)ServerRetrieves annotations on biological effects of chemicals and determines which ones are enriched. Tools
ChemicalToolboxServerFor processing, analysing and visualising chemical data, and performing molecular simulations. Domain
CIRM-CFBPServerWeb based access to tools (SkIf, KI-S) of IRHS-EmerSys lab. Tools
Cistrome Analysis PipelineServerChIP-chip/seq and gene expression data Domain
Climate Science WorkbenchServerA comprehensive set of analysis tools and consolidated workflows for climate analysis and visualisation Domain
CLIP-ExplorerServerThe CLIP-Explorer is a webserver to process, analyse and visualise CLIP-Seq data. Domain
Codon HarmonizerServerEasily generate codon harmonized variants of gene sequences for heterologous expression Tools
Coloc-statsServera unified web interface to perform co-localization analysis of genomic features Domain
CoralSNPServerStandard Tools for Acroporid Genotyping (STAG) Domain
CorGATServerAlign complete assemblies of SARS-CoV-2 genomes wih the reference genomic sequence, to obtain a list of polymorphic positions and to annotate genetic variants. Domain
CoSSciServerTools for solving Galton's problem in Comparative Research and complex network problems in Social Science. Domain
COVID-19ServerA companion to our study describing the analysis of early COVID-19 data Domain
CropGalaxyServerHosts tools for the RiceGalaxy, GOBii project, HTPG project and the Excellence in Breeding (EiB) platform, including genomic selection, marker selection, GWAS, imputation, file conversion, and cluster analysis. Domain
deepTSServerExplore transcriptional switches from pairwise, temporal, and population RNA-Seq using deepTS. Tools
DintorServerGWA and NGS tools and modules for functional annotation of genes and gene products Domain
epiGeECServerCompare user-provided epigenomic datasets with thousands of public datasets. Tools
Erasmus MCServerGeneral purpose genomics analysis, featuring many standard tools plus many additional tools. Genomics
FreeBioinfoServerGalaxy for metagenomic analysis. Domain
GalaxEastServerIntegrative 'omics data analysis Genomics
Galaxy AfricaServerDevoted to assisting researchers on the African continent accelerate their genomics research and analyses. Genomics
Galaxy for EcologyServerA web platform to get, process, analyze and visualize ecological data Domain
Galaxy Genome Annotation (GGA)ServerGalaxy for genome annotation Domain
Galaxy ImagingServerGalaxy Docker repository for image analysis Domain
Galaxy IndiaServerThis is the Indian galaxy server, Welcome Home! Genomics
Galaxy Integrated Omics (GIO)ServerProteomics Informed by Transcriptomics (PIT) methodology, and selection of surrogate peptides for targeted proteomics. Domain
Galaxy TestServerBeta version of Galaxy Main Genomics
Galaxy-PServerGalaxy-P is a multiple 'omics' data analysis platform with particular emphasis on mass spectrometry based proteomics. Galaxy-P is developed at the University of Minnesota, deployed at the Minnesota Supercomputing Institute. Domain
Galaxy-SynBioCADServerSynthetic biology and metabolic engineering Domain
Galaxy@GenOuestServerA general purpose Galaxy server Includes tools developped by Dyliss and GenScale bioinformatics research teams in Rennes, France. Genomics
Galaxy@PasteurServerGeneral purpose genomics analysis server. Genomics
Galaxy@PRABIServerIncludes bioinformatics tools developed by the research teams working in the perimeter of the PRABI core facility, including kissplice/kissDE, TETools, SEX-DETector, and priam. Genomics
GalaxyTrakrServerSupporting food-borne pathogen research Domain
GASLINIServerSupports PIPE-T, a tool for Reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) analysis. Tools
GCAC : Galaxy for Compound Activity ClassificationServerGCAC is a web enabled platform for predictive model building using R and caret package for virtual screening. Tools
GeneLabServerNASA GeneLab is a comprehensive space-related omics database in which users can upload, download, share, store, and analyze spaceflight and corresponding model organism data. Genomics
Genomic HyperbrowserServerStatistical methodology and computing power to handle a variety of biological inquires on genomic datasets Domain
GigaGalaxyServerGigaGalaxy hosts tools and data analyses from papers published in *GigaScience*. Genomics
GraphClustServerGraphClust2 is a workflow for scalable clustering of RNAs based on sequence and secondary structures feature. GraphClust2 is implemented within the Galaxy framework and consists a set of integrated Galaxy tools and flavors of the linear-time clustering workflow. Tools
GrAPPAServerGrAPPA is a web-based interface constructed on the Galaxy framework for graph theoretical tools. It contains novel combinatorial methods integrated into a complete microarray analysis toolchain, from uploading raw high-throughput data to visualization of results. Domain
Halogen BondingServerVisualize halogen bond contacts in the protein binding site. Analyze a protein binding site for halogen bonding hotspots. Evaluate halogen contacts with the protein backbone using the scoring function XBScore. Tools
Hardwood GenomicsServerA simplified, workflow-centic interface to Galaxy, focused on genomics data from hardwood trees. Domain
HiCExplorerServerTools to process and visualize chromosome conformation. Domain
Human Cell AtlasServerTools and workflows for the analysis of Single Cell RNA-Seq data. It includes a module that connects to the Matrix Service API of the Human Cell Atlas’s Data Coordination Platform that enables retrieval of gene expression matrices from any data sets in the Human Cell Atlas. Domain
Huttenhower LabServermetagenomic and functional genomic analyses, intended for research and academic use Domain
HyPhy HIV NGS ToolsServerTools for HIV sequencing analysis. Domain
IBERS @ AberystwythServerSoftware, tools and pages written by IBERS researchers for release to the wider community. Tools
IDENAPServerInter-Domain Ecological Network Analysis Pipeline Domain
ImmPort GalaxyServerFlow Cytometry Analysis. Domain
immuneMLServerMachine learning-based analysis and classification of adaptive immune receptors and repertoires (AIRR). Domain
InteractoMIXServerA one-stop resource offering a wide range of computational analyses from proteome-wide interactomes to structure of protein complexes Domain
IPK Galaxy Blast SuiteServerPart of the IPK Crop Analysis Tools Suite (CATS). Offers access to genomic references published by IPK and collaborative projects Domain
Langille LabServerPrediction of the unobserved character states in a community of organisms from phylogenetic information. Tools
LAPPS GridServerAn open, interoperable web service platform for natural language processing (NLP) research and development. Domain
Lebanese University GalaxyServerIncludes the SpCLUST tool set for fast and reliable clustering of potentially divergent biological sequences Tools
LifeportalServera Galaxy instance to satisfy the computational needs of the Norwegian research community in life sciences but also of any other user willing to use the service. Genomics
LiSIsServerA platform for Virtual Screening. Tools
Machine Learning WorkbenchServerA comprehensive set of data preprocessing, machine learning, deep learning and visualisation tools, consolidated workflows for end-to-end machine learning analysis and training materials to showcase the usage of these tools. Domain
Majewski LabServerDetection of recurrent Allelic Imbalance in tumors using whole Exome sequencing data. Tools
Mandoiu LabServerA customized installation of the Galaxy framework deploying bioinformatic tools and pipelines developed in the Mandoiu Lab at the University of Connecticut for high-throughput sequencing and immunogenomics data analysis Tools
MaREA4GalaxyServerMetabolic Reaction Enrichment Analysis and visualization of RNA-seq data Tools
Martin Luther U. Halle-WittenbergServerProvides implementations of GeMoMa, InMoDe, CRISPRer, TALgetter, TALgetterLong, TALENoffer, and Dimont Tools
MetabolomicsServerA community driven metabolomics Galaxy service Domain
MetagenomicsServera webserver to process, analyse and visualize Metagenomic and Microbiota data in general. Domain
Metaproteomics GatewayServerMetaproteomics gateway providing access to documentation and other instructional materials, and an opportunity for hands-on training using example datasets and optimized metaproteomics workflows Domain
MigaleServerA general purpose genomics server with an emphasis on metagenomics, including FROGS and several Migale developed tools. Genomics
MiModD NacreousMapServerNacreousMap mapping/plotting tool of MiModD for users of MiModD who do not want to install the required dependencies (R and rpy2) for graphical output from this tool on their local system. Tools
MISSISSIPPIServerSupport for analyses of RNA and small RNA sequencing datasets as well as for epigenetics or metagenomics studies. Domain
Molecular Property Diagnostic Suite - Diabetes Mellitus Portal (MPDSDM)ServerA disease-specific open source web portal for Diabetes Mellitus. Domain
Molecular Property Diagnostic Suite - Tuberculosis (MPDSTB)ServerA disease-specific web portal for Tuberculosis for drug discovery and development. Domain
NanoGalaxyServera webserver to process, analyse and visualize Oxford Nanopore Technologies (ONT) data and similar long-reads technologies. Domain
NetworkAnalystServerFor mapping and quantification of raw RNA-seq data Domain
NG-TaxServerA Semantic Framework for High-throughput Marker Gene (Amplicon) Analysis Tools
NGPhylogeny.frServerRobust phylogenetic analysis for everyone. Domain
OqtansServerCustomized Galaxy, extended with machine learning based tools for sequence and tiling array data analysis. Domain
OrioneServerA Galaxy based web server for microbiology. Orione includes all post mapping or assembling steps from scaffolding to complete annotation pipelines. Domain
OSDDlinux LiveGalaxyServerDrug discovery Domain
OsirisServerPhylogenetics Tools
PalfinderServerMicrosatellite development. Tools
PepSimiliServerIntegrated workflow tool for mapping of massive peptide repertoires on whole proteomes and delivering streamlined, systems-level biological interpretation. Tools
PhagePromotorServerPredict promoter sequences in phage genomes, using machine learning models. Tools
PIAServerPhylogenetics and gene interaction Tools
Plant Anaylsis WorkbenchServerA community driven plant data analsys Galaxy service Domain
PlantGenIEServerPlant Genome Integrative Explorer Galaxy instance Domain
PreSTIGEServerPredicting Specific Tissue Interactions of Genes and Enhancers Tools
Proteogenomics GatewayServerProvides access to documentation and other instructional materials, and an opportunity for hands-on training using example datasets and optimized proteogenomics workflows. The main goal of this server is to provide documentation to facilitate training and mastery of these software and workflows. Domain
ProteoREServerProteoRE (Proteomics Research Environment) Domain
ProtologgerServerAll-in-one genome description tool, aimed at simplifying gathering the data required for writing protologues. This includes providing taxonomic, functional and ecological insights. Tools
RepeatExplorerServerGraph-based clustering and characterization of repetitive sequences, and detection of transposable element protein coding domains. Domain
RiboGalaxyServerTools for the analysis and visualization of ribo-seq data obtained with the ribosome profiling technique. Domain
Rice GalaxyServerTools for designing single-nucleotide polymorphism assays, analyzing genome-wide association studies, population diversity, rice−bacterial pathogen diagnostics, and a suite of published genomic prediction methods. Domain
RNA WorkbenchServermore than 50 bioinformatics tools dedicated to different research areas of RNA biology, including RNA structure analysis, RNA alignment, RNA annotation, RNA-protein interaction, ribosome profiling, RNA-Seq analysis, and RNA target prediction. Domain
SciensanoServerGeneral purpose Galaxy server optimized for microbiological genomics applications of interest for public health. Genomics
SHAMANServerA user-friendly website for metataxonomic analysis from raw reads to statistical analysis Domain
Single Cell Omics workbenchServerThe Single Cell Omics workbench is a comprehensive set of analysis tools and consolidated workflows Domain
Street ScienceServer a Galaxy dedicated for the Street Science Community Genomics
TGMServerThe TGM pipeline is a workflow combining tranSMART server, Galaxy Server and MINERVA platform to enable visually-aided exploration, analysis and interpretation of high-throughput translational medicine data. Domain
TreeGenesServer TreeGenes integrates genotype, phenotype, and environmental data that can be processed for association mapping and landscape genomics, with a focus on forest trees. This functionality is provided by Tripal Galaxy, a module for Tripal that provides seamless support for running Galaxy workflows directly in the site. Users can analyze data provided by TreeGenes or their own. Domain
UseGalaxy.beServerGeneral purpose genomics Galaxy server Genomics
UseGalaxy.euServerThe European UseGalaxy server. UseGalaxy
UseGalaxy.frServerGeneral purpose genomics Galaxy server Genomics
UseGalaxy.noServerA central, joint & free Galaxy instance for Norway-based researchers and their collaborators, with ~2000 bioinformatics tools, 200GB short-term storage and project storage on nels.bioinfo.no. Genomics
UseGalaxy.org (Main)ServerThe Galaxy Project free public server; biomedical research UseGalaxy
UseGalaxy.org.auServerThe Australian UseGalaxy server. UseGalaxy
USMI Galaxy DemonstratorServerThis Galaxy implementation is meant to demonstrate integration of microbial domain Biological Resource Center (mBRC) catalogues into the bioinformatics data integration environment. Tools
Vinther LabServerRNA structure-probing data analysis to improve the prediction of RNA secondary and tertiary structure and allow structural changes to be identified and investigated. Tools
VINYL (Variant prIoritizatioN bY survivaL analysis)ServerA flexible and fully automated system for the functional annotation and prioritization of genetic variants. Tools
Viral Variant Visualizer (VVV)ServerDetermine the composition of a viral population Tools
VirAmpServerVirAmp is a web-based semi-de novo fast virus genome assembly pipeline designed for extremely high coverage NGS data. Domain
VirologyServerA comprehensive set of analysis tools and consolidated workflows for virology work, including SARS-CoV-2. Domain
Workflow4MetabolomicsServerA collaborative portal dedicated to metabolomics data processing, analysis and annotation. Domain
wQAPServerQAP is an open source software that can be used to analyze virus quasispecies using CBS, NGS and TGS data. wQAP (web QAP), is the online version of QAP. Tools

Academic Cloud Services

These are academic cloud providers where ready to run Galaxy instances are available. Many of these are restricted to users within a particular geographic domain, for example, a country, province, or consortium of countries. These are often free to eligible researchers.

ResourceLinkSummaryPurviewKeywords
AnVILAcademicRun Galaxy inside the secure AnVIL environment on Google Cloud Platform. GlobalGenomics
CLIMBAcademicThe CLIMB project (Cloud Infrastructure for Microbial Bioinformatics) develops and deploys a world leading cyber-infrastructure for microbial bioinformatics; providing free cloud-based compute, storage, and analysis tools for academic microbiologists in the UK. United KingdomGenomics
GenAPAcademicAll Canadian researchers are eligible for a GenAP account. International researchers that have a Canadian collaborator can also be sponsored and become eligible to a GenAP account as well. CanadaGenomics
Globus GenomicsAcademicGlobus Genomics provides hardened high-performance Galaxy servers running with Globus on AWS. GlobalGenomics
JetstreamAcademicJetstream is part of XSEDE, a "collection of integrated advanced digital resources and services" and is funded by NSF. United StatesGenomics
LaniakeaAcademicLaniakea provides the possibility to automate the creation of Galaxy-based virtualized environments through an easy setup procedure, providing an on-demand workspace ready to be used by life scientists and bioinformaticians, with built-in storage encryption for user data. ItalyGenomics
MetaCentrumAcademicMetaCentrum regional virtual organization of the Czech National Grid Infrastructure (NGI) and is accessible to employees and students of research and academic organizations of the Czech Republic and for scientific purposes only. CzechiaGenomics
Nectar CloudAcademicSet up a Galaxy server on Australia's Nectar research cloud. AustraliaGenomics
PhenoMeNalAcademicLarge scale computing for medical informatics Domain
SNIC Science Cloud (SSC)AcademicA national-scale cloud infrastructure for Swedish Academia SwedenGenomics
VEuPathDB GalaxyAcademicA free, interactive, web-based platform for large-scale data analysis focused on eukaryotic pathogens. Merges the former VectorBase and EuPathDB servers. GlobalDomain

Commercial Cloud Services

These are commercial cloud providers where ready to run Galaxy instances are available. You need to pay for these, but you only need to pay for as long as you need the instance to be up.

ResourceLinkSummaryKeywords
Amazon Web Services (AWS)CommercialSet up you own general purpose genomics server runing AWS using GVL and CloudMan. Genomics
AnVILCommercialRun Galaxy inside the secure AnVIL environment on Google Cloud Platform. Genomics
G-OnRampCommercialG-OnRamp provides a user-friendly, web-based platform for collaborative, end-to-end annotation of eukaryotic genomes using UCSC Assembly Hubs and JBrowse/Apollo genome browsers with evidence tracks derived from sequence alignments, ab initio gene predictors, RNA-Seq data, and repeat finders. Domain
Globus GenomicsCommercialGlobus Genomics provides hardened high-performance Galaxy servers running with Globus on AWS. Genomics
PhenoMeNalCommercialLarge scale computing for medical informatics Domain

Containers

These Galaxy instances are prepackaged using container technology, usually Docker. You run these locally by first installing the container technology (Docker is easy), and then launching the containerized Galaxy within that technology. These use local resources.

ResourceLinkSummaryKeywords
ASaiMContainerIntegrates tools specifically chosen for metagenomic and metatranscriptomic studies and hierarchically organized to orient user choice toward the best tool for a given task. Tools
ATACgraphContainerATAC-seq for biologists with minimal bioinformatics knowledge to analyze chromatin accessibility Domain
BRIDGEContainerPrepare, simulate and analyse and visualise molecular simulations, especially molecular dynamics and free energies. Domain
CAFUContainerA Galaxy framework for exploring unmapped RNA-Seq data Domain
ChemicalToolboxContainerFor processing, analysing and visualising chemical data, and performing molecular simulations. Domain
CRAVAT-PContainerA Docker image containing a fully-operational Galaxy instance with pre-installed demonstration material for CRAVAT-P. Tools
deepTSContainerExplore transcriptional switches from pairwise, temporal, and population RNA-Seq using deepTS. Tools
Epigenomics GalaxyContainerGalaxy Docker image for epigenomics analysis Domain
EWAS-GalaxyContainerGalaxy Docker image for population epigenetics data analysis Domain
Galaxy basic sequence manipulationContainerGalaxy Docker repository for basic sequence data analysis. Domain
Galaxy BLAST+ContainerA complete and production ready Galaxy instance with installed BLAST+ tools. Domain
Galaxy DockerContainerThe Galaxy Docker Image is an easy distributable full-fledged Galaxy installation, that can be used for testing, teaching and presenting new tools and features. Genomics
Galaxy Exome-SeqContainerGalaxy Docker repository for Exome sequencing data analysis Domain
Galaxy Genome Annotation (GGA)ContainerGalaxy for genome annotation Domain
Galaxy ImagingContainerGalaxy Docker repository for image analysis Domain
Galaxy Workbench for Mass Spectrometry ImagingContainerGalaxy Docker image for mass spec imaging Domain
GraphClustContainerGraphClust2 is a workflow for scalable clustering of RNAs based on sequence and secondary structures feature. GraphClust2 is implemented within the Galaxy framework and consists a set of integrated Galaxy tools and flavors of the linear-time clustering workflow. Tools
NG-TaxContainerA Semantic Framework for High-throughput Marker Gene (Amplicon) Analysis Tools
NGPhylogeny.frContainerRobust phylogenetic analysis for everyone. Domain
q2GalaxyContainerQIIME 2 Galaxy Docker image. Tools
QuanTPContainerA Docker image containing a fully-operational Galaxy instance with pre-installed QuanTP tools. Tools
RNA Modification CallingContainerGalaxy Docker image for RNA analysis and modification calling Tools
RNA WorkbenchContainermore than 50 bioinformatics tools dedicated to different research areas of RNA biology, including RNA structure analysis, RNA alignment, RNA annotation, RNA-protein interaction, ribosome profiling, RNA-Seq analysis, and RNA target prediction. Domain
SARS-CoV-2 ENA SubmissionContainerGalaxy Docker image for submitting SARS-CoV-2 data to ENA Tools
Workflow4MetabolomicsContainerA collaborative portal dedicated to metabolomics data processing, analysis and annotation. Domain

Virtual Machines (VMs)

VMs are similar to containers but use a different technology. Containers take significant advantage of your computer's underlying operating system. Virtual Machines include an entire supporting operating system, and are significantly larger than containers. You run these locally by first installing a VM player like VirtualBox, and then downloading and launching the VM within that player. These use local resources.

ResourceLinkSummaryKeywords
G-OnRampVMG-OnRamp provides a user-friendly, web-based platform for collaborative, end-to-end annotation of eukaryotic genomes using UCSC Assembly Hubs and JBrowse/Apollo genome browsers with evidence tracks derived from sequence alignments, ab initio gene predictors, RNA-Seq data, and repeat finders. Domain
GCAC : Galaxy for Compound Activity ClassificationVMGCAC is a web enabled platform for predictive model building using R and caret package for virtual screening. Tools
PiRATE: a Pipeline to Retrieve and Annotate Transposable ElementsVMDetect, classify and annotate TEs of non-model organisms. Tools
Shapiro LabVMRNA structure and design tools including RNA2D3D and StructureLab Tools



About This Directory

The Galaxy Community has created Galaxy instances in many different forms and for many different applications. This directory lists the options we know about, including:

  • Galaxy servers,
  • cloud services that support Galaxy instances, and
  • virtual machines and containers that can be easily deployed for your own server.

Which Platform / Platform Type to Choose?

Your choices depends upon your needs. If you want to use Galaxy with a minimum of setup work, then try starting with a UseGalaxy orPublic Server. There are over 125 of these platforms to pcik from all of which can be use with little or no setup on your part. However if none of those meet your needs then here are some guidelines for other cases.

UseGalaxy ServersPublic ServersTIaaSAcademic CloudsCommercial CloudsContainersVMsLocal
Free to useYesYesYesYes1NoYesYesYes
Uses your local compute infrastructureNoNoNoNoNoYes2Yes2Yes
Datasets (including intermediate) total > 250GBNo?5YesYesYesYes3Yes3Yes
Computational requirements are similarly largeNo?5YesYesYesYes3Yes3Yes
Share Galaxy objects outside your organizationYesYesYesYesYesYes4Yes4Yes5
Install custom tools and reference genomcesNoNoNoYes5YesYesYesYes
Have absolute data security requirementsNoNoNo?5?5?5?5Yes

1 Depends on provider, and if you are eligible for the service
2 These technologies can be deployed on clouds or locally.
3 Depends on the size of the system you are running it on.
4 With these technologies you can save the server and share the entire platform with them.
5 Depends on configuration.

Most of these platform types are defined above (click on each tab), but two aren't:

TIaaS

Training Infrastructure as a Service (TIaaS) is a service offered by some UseGalaxy servers to specifically support training use cases. See TIaaS for more information.

Local

Finally, you can install your own local instance of Galaxy from scratch. See Get Galaxy for details on how to do this. This has become much easier to do in recent years.

Resource Keywords

Each resource has a set of keywords associated with them.

Real keywords

(What about listing these by the resource's domain, for example, the research methodology (e.g., RNA-Seq), the clade (e.g., crops), or field e.g., metagenomics) that a resource is targeted at? We are working on it.)

Scope

Initially, there is only one keyword per resource and that defines the scope of the resource:

UseGalaxy

UseGalaxy servers implement a common core set of tools and reference genomes, and are open to anyone to use.

Genomics

These servers implement a broad range of tools and aren't specific to any part of the tree of life, or to any type of analysis.

Domain

Domain resources specialize in either a particular branch of the tree of life or in particular types of analysis. Within their specializations, domain resources offer a wide variety of tools.

Tool Publishing

Tool publishing resources make tools easily available so that researchers can use them without having to install and use command line versions. The distinction between domain resources and tool publishing resources is fuzzy. In general, tool publishing resources expose tools from a particular organization, while domain resources include tools / datasets from other organizations and have a larger goal in mind.

Add a resource to this directory

If you maintain a Galaxy resource that can be listed on this directory, then please describe your Galaxy resource here. We'll contact you with any question and then post it this directory.