Welcome to the Galaxy Community Hub

The meeting point where you can find curated documentation for all things Galaxy

Galaxy is an open-source platform for FAIR data analysis that enables users to:

  • use tools from various domains (that can be plugged into workflows) through its graphical web interface.
  • run code in interactive environments (RStudio, Jupyter...) along with other tools or workflows.
  • manage data by sharing and publishing results, workflows, and visualizations.
  • ensure reproducibility by capturing the necessary information to repeat and understand data analyses.

The Galaxy Community is actively involved in helping the ecosystem improve and sharing scientific discoveries.

Announcements

GTN Smörgåsbord 2: 14-18 March, join a free, global, week-long Galaxy Training event covering everything from RNA-Seq, Single Cell, Proteomics, SARS-CoV-2 and more!  This year will include Galaxy Admin Training.

News

GTN Smörgåsbord 2: 14-18 MarchA second Smörgåsbord with even more Galaxy Training

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.

Events

Structural variant discovery from long-read sequencing data on the cloud with Galaxy in TerraJan 19. Galaxy in AnVIL for structural variants.

Galaxy Papercuts CoFest DayJan 20. A community contribution day

Microbiome Bioinformatics with QIIME2Jan 31. We'll be teaching w/ our new Galaxy graphical interface - join us and learn to use QIIME 2 through a GUI! Register by January 7.

Galaxy Developer RoundtableFeb 3. Volunteer to lead the discussion

Galaxy Developer RoundtableFeb 17. Volunteer to lead the discussion

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.

Careers

PhD StudentFaculty of Science, Technology, Engineering and Mathematics (STEM) at The Open University, UK

Community Director for the Global Galaxy ProjectDepartment of Biology, Johns Hopkins University, Baltimore, Maryland, United States

UI/UX EngineerBiology Department, Johns Hopkins University, Baltimore, Maryland, United States

DevOps EngineerDepartment of Biology, Johns Hopkins University, Baltimore, Maryland, United States

Scientific software developerRECETOX, Brno, Czechia

New Platforms

Galaxy@AuBiStandard tools for DNA/RNA analysis and additional ones on project demands.

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 Publications

Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function Martin, D.P., Lytras, S., Lucaci, A.G., Maier, Gruning, B. ... Kosakovsky Pond S.L. (2022). bioRxiv.

VectorBase.org updates: bioinformatic resources for invertebrate vectors of human pathogens and related organisms Giraldo-Calderón, G. I., Harb, O.S., Kelly S.A., and Rund S. SC, Roos D.S., McDowell M.A. (2022). Current Opinion in Insect Science.

Galaxy workflows for fragment-based virtual screening: A case study on the SARS-CoV-2 main protease Bray, S., Dudgeon, T., Skyner, R., Backofen, R., Grüning, B., & Delft, F. von. (2021). ChemRxiv.

Galaxy Is a Suitable Bioinformatics Platform for the Molecular Diagnosis of Human Genetic Disorders Using High-Throughput Sequencing Data Analysis. Five Years of Experience in a Clinical Laboratory Chappell, K., Francou, B., Habib, C., Huby, T., Leoni, M., … Bouligand, J. (2021). Clinical Chemistry, hvab220.

MCMICRO: A scalable, modular image-processing pipeline for multiplexed tissue imaging Schapiro, D., Sokolov, A., Yapp, C., Chen, Y.-A., Muhlich, J. L., … 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., … Zambelli, F. (2021). BMC Bioinformatics, 22(15), 544.