Welcome to the Galaxy Community Hub

News

Galaxy Governance Status Update – Updates about the different governance bodies

GCC2022 Call for BoFs – Birds of feather flock together at GCC

Towards a sustainable storage, enabling co-financing of public infrastructure

Galaxy Release 22.01 – Colour Selector, Robust File Uploads, Beta History Improvements, FastAPI, Galaxy Vault & much more!

GTN Smörgåsbord 2: 14-18 March – A second Smörgåsbord with even more Galaxy Training

Events

Making sense of genomic data: COVID-19 web-based bioinformatics – Jul 25. This course will introduce you to SARS-CoV-2 bioinformatics pipelines. Learn how to use the web-based tool Galaxy for bioinformatics analyses, including how to input and process data, build a pipeline, and use existing workflows.

Galaxy Community Call: Machine Learning Toolkit in Galaxy – Aug 4. A forum to share updates and discuss community-wide topics

Galaxy Community Call: Outcomes of the Outreachy projects – Aug 18. A forum to share updates and discuss community-wide topics

Genome Assembly and Annotation 2022 – Aug 31. 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).

Galaxy Community Call: Galaxy Release Process: Overview and Coming Changes – Sep 1. A forum to share updates and discuss community-wide topics

@galaxyproject

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 Well-being and Mental Health Project GCC2022 BoF Session Highlights – Seventh blog post presenting the Outreachy project on Mental Health

Galaxy climate to support local/regional initiatives and concrete actions to fight climate change – Second blog post presenting the Outreachy project on Galaxy Climate

Creating a Mentally Healthy Work Environment – Sixth blog post presenting the Outreachy project on Mental Health

The Importance of Mental Health and its Risk Factors – Fifth blog post presenting the Outreachy project on Mental Health

Common Challenges Faced in Open-source Part II – Fourth blog post presenting the Outreachy project on Mental Health

Careers

PhD Student in Statistics – Bacon Lab, School of Life, Health & Chemical Sciences, The Open University, United Kingdom

Postdoctoral Scholar – Stratton Lab, Dept. of Physiology & Cell Biology, Davis Heart and Lung Research Institute, Columbus, Ohio, United States

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

Bioinformatician – Pfizer, Cambridge, Massachusetts, United States

Research Associate in Biomedical Data Science – Department of Biostatistics, Bloomberg School of Public Health, Johns Hopkins University, Baltimore. Maryland, United States

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.