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.
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.
Transcriptomics Data Analysis with Galaxy – Jan 24. This course covers methods to process raw data from genome-wide mRNA expression studies including data normalization, differential expression, clustering, and pathway analysis.
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
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.
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.
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.
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
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).
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.