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
Galaxy for
SCIENTISTS
Galaxy for
TRAINERS
Galaxy for
TOOL AUTHORS
Galaxy for
DEVELOPERS
Galaxy for
ADMINS
News
GTN Smörgåsbord 2: 14-18 March – A 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 surveillance – A first view of the Omicron lineage’s mutational pattern derived transparently and fully reproducibly from raw sequencing reads
GTN Video Library – Videos from online training events are now easier to find.
GTN API with OpenAPI 3 specification – Access data from the GTN in a more accessible, API based way.
Events
Microbiome Bioinformatics with QIIME2 – Jan 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 Roundtable – Feb 3. Volunteer to lead the discussion
Bulk RNASeq: from counts to differential expression - online – Feb 4. Explore your transcriptomics experiments
Outreachy internships: outcomes – Feb 17. Outreachy interns will present the outcomes of their projects
Galaxy HTS data analysis workshop for CRC 1425, CRC 992 and MeInBio members – Feb 21. Workshop on high-throughput data analysis. This is an online course and is limited to the members CRC 1425, CRC 992 and MeInBio.
Recent Videos
How Galaxy Imaging makes cloud-based image analysis possible – Presented at the Euro-BioImaging Virtual Pub
How to launch Galaxy workflows from Dockstore – Dockstore and Galaxy are now integrated
Galaxy 21.09 Release Highlights – New Toolbox; Change Datatype + DBkey; Remote Files Enhancements
Image analysis in Galaxy - pain points and lessons learnt – October 28 Galaxy Developer Round Table
Fast, scalable, free, & user-friendly Galaxy workflows for reference genome assembly – The latest version of VGP's pipeline has been ported to Galaxy.
Blog
Galaxy as a sharing infrastructure and how this enables efficient user support
Commoditising open computing in Galaxy – Transparent, reproducible open computing as a public good
A user's guide to the virtual, automated, computing Lab Notebook in Galaxy. – How a "Redo" button enables transparent and open scientific computing.
A contributor's guide to the Galaxy – How to make Galaxy even better
How to set up Galaxy for research on AWS using Amazon Lightsail – A personal Galaxy instance on the cloud with a fixed monthly cost.
Careers
PhD Student – Faculty of Science, Technology, Engineering and Mathematics (STEM) at The Open University, UK
DevOps Engineer – Department of Biology, Johns Hopkins University, Baltimore, Maryland, United States
Community Director for the Global Galaxy Project – Department of Biology, Johns Hopkins University, Baltimore, Maryland, United States
UI/UX Engineer – Biology Department, Johns Hopkins University, Baltimore, Maryland, United States
Scientific software developer – RECETOX, Brno, Czechia
New Platforms
Galaxy@AuBi – Standard tools for DNA/RNA analysis and additional ones on project demands.
miRGalaxy – NGS data analysis focusing on microRNAs and their sequence variants—isomiRs.
MitoLink – An integrated workflow system to facilitate understanding of genotype-phenotype correlations in cases of mitochondrial dysfunction.
Galaxy India – The Indian community server.
VVV – Determine the composition of a viral population.
SHAMAN – A user-friendly website for metataxonomic analysis from raw reads to statistical analysis.
IPK Blast – BLAST 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.