Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational research.

  • Accessible: programming experience is not required to easily upload data, run complex tools and workflows, and visualize results.
  • Reproducible: Galaxy captures information so that you don't have to; any user can repeat and understand a complete computational analysis, from tool parameters to the dependency tree.
  • Transparent: Users share and publish their histories, workflows, and visualisations via the web.
  • Community centered: Our inclusive and diverse users (developers, educators, researchers, clinicians, etc.) are empowered to share their findings.

Welcome to the Galaxy Community Hub, where you'll find community curated documentation of all things Galaxy.

News

How does the GTN stay FAIR and Collaborative?Find out how contributing simple markdown tutorials can result in fantastically FAIR training.

Omicron and SARS-CoV-2 genome surveillanceA first view of the Omicron lineage’s mutational pattern derived transparently and fully reproducibly from raw sequencing reads

GTN Video LibraryVideos from online training events are now easier to find.

GTN API with OpenAPI 3 specificationAccess data from the GTN in a more accessible, API based way.

Galaxy Release 21.09Tool Panel Views, Collections, Reports, Remote Data, FastAPI, SQLAlchemy & much more!

Events

FROGS formation: tools for bioinformatics and statistics analyses with amplicon metagenomics data Nov 29. Learn to work with NGS data of 16S, 18S, ITS … DNA using our Galaxy instance and the FROGS pipeline.

Genome Assembly and Annotation 2021Dec 1. A 3-day training course on bioinformatics methods for de novo assembly and structural and functional annotation of genomes using short (Illumina) and long reads (PacBio / Oxford Nanopore) sequencing technologies (will be run in french).

Genome Assembly and AnnotationDec 2. Using Galaxy and the command line. Register by 25 November.

Migrating tools to the cloud - onlineDec 2. Galaxy on the Cloud

RNA Sequencing (RNA-seq) and Differential ExpressionDec 6. Using Galaxy and the command line. Register by 29 November.

Recent Videos

How Galaxy Imaging makes cloud-based image analysis possiblePresented at the Euro-BioImaging Virtual Pub

How to launch Galaxy workflows from DockstoreDockstore and Galaxy are now integrated

Galaxy 21.09 Release HighlightsNew Toolbox; Change Datatype + DBkey; Remote Files Enhancements

Image analysis in Galaxy - pain points and lessons learntOctober 28 Galaxy Developer Round Table

Fast, scalable, free, & user-friendly Galaxy workflows for reference genome assemblyThe latest version of VGP's pipeline has been ported to Galaxy.

Blog

Galaxy interactive tools and R Shiny appsSome dreams, mixing synchronous and asynchronous workflows in Galaxy and adding high degree of interactivity into Galaxy thanks to R Shiny are ready to be reality

An overview and statistics on the Galaxy Help ForumGalaxy Help, together with the different Gitter channels, is one of the primary meeting places where Galaxy users turn to searching for answers.

FORCeS eScience course reportTools in Climate Science: Linking Observations with Modelling

Sunsetting the CloudLaunch serviceThere are now better alternatives to using Galaxy on the cloud

SARS-CoV-2 analysis training with Galaxy: a perspective from AfricaThe switch to online bioinformatics training forced by the COVID-19 pandemic has opened spaces for collaboration in ways that were previously limited by geography.

Careers

UI/UX EngineerUniversity of Freiburg, Freiburg, Germany

Bioinformatics Software and Platforms Service ManagerQCIF, Brisbane, Queensland, Australia

Postdoctoral position: multidimensional integration of high throughput sequencing data MeInBio, University of Freiburg, Freiburg, Germany

Sujet stage M2: Développement d’un workflow Galaxy d’analyse de promoteurs chez les plantesLimagrain, Chappes, France

Scientific software developerRECETOX, Brno, Czechia

New Platforms

miRGalaxyNGS data analysis focusing on microRNAs and their sequence variants—isomiRs.

MitoLinkAn integrated workflow system to facilitate understanding of genotype-phenotype correlations in cases of mitochondrial dysfunction.

Galaxy IndiaThe Indian community server.

VVVDetermine the composition of a viral population.

SHAMANA user-friendly website for metataxonomic analysis from raw reads to statistical analysis.

IPK BlastBLAST for barley, wheat, and rye. Part of IPK Crop Analysis Tools Suite (CATS).

Recent Pubs

MCMICRO: A scalable, modular image-processing pipeline for multiplexed tissue imaging Schapiro, D., Sokolov, A., Yapp, C., Chen, Y.-A., Muhlich, J. L., Hess, J., Creason, A. L., Nirmal, A. J., Baker, G. J., Nariya, M. K., Lin, J.-R., Maliga, Z., Jacobson, C. A., Hodgman, M. W., Ruokonen, J., Farhi, S. L., Abbondanza, D., McKinley, E. T., Persson, D., … Sorger, P. K. (2021). Nature Methods, 1–5.

miRGalaxy: Galaxy-Based Framework for Interactive Analysis of microRNA and isomiR Sequencing Data Glogovitis, I., Yahubyan, G., Würdinger, T., Koppers-Lalic, D., & Baev, V. (2021). Cancers, 13(22), 5663.

Laniakea@ReCaS: Exploring the potential of customisable Galaxy on-demand instances as a cloud-based service Tangaro, M. A., Mandreoli, P., Chiara, M., Donvito, G., Antonacci, M., Parisi, A., Bianco, A., Romano, A., Bianchi, D. M., Cangelosi, D., Uva, P., Molineris, I., Nosi, V., Calogero, R. A., Alessandri, L., Pedrini, E., Mordenti, M., Bonetti, E., Sangiorgi, L., … Zambelli, F. (2021). BMC Bioinformatics, 22(15), 544.

Expanding the Galaxy’s reference data VijayKrishna, N., Joshi, J., Coraor, N., Hillman-Jackson, J., Bouvier, D., Beek, M. van den, Eguinoa, I., Coppens, F., Golitsynskiy, S., Stolarczyk, M., Sheffield, N. C., Gladman, S., Cuccuru, G., Grüning, B., Soranzo, N., Rasche, H., Langhorst, B. W., Bernt, M., Fornika, D., … Blankenberg, D. (2021). BioRxiv, 2020.10.09.327114.

Ready-to-use public infrastructure for global SARS-CoV-2 monitoring Maier, W., Bray, S., van den Beek, M., Bouvier, D., Coraor, N., Miladi, M., Singh, B., De Argila, J. R., Baker, D., Roach, N., Gladman, S., Coppens, F., Martin, D. P., Lonie, A., Grüning, B., Kosakovsky Pond, S. L., & Nekrutenko, A. (2021). Nature Biotechnology, 1–2.