GCC2021 Fellowship applications due May 17
GCC2021 James Taylor Fellowships
Galaxy Communinty Fund Fellowships
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
Two New Teaching Papers using Galaxy – Two hand-in-hand teaching papers have been published this week using Galaxy as a teaching platform.
COVID updates: B.1.617.2 detected in COG-UK data from the beginning of April – We checked the COG-UK data to see if we’d find representative samples of B.1.617.2 (one of the Indian lineages, and a Variant of Concern).
Exploring and monitoring COVID-19 variants with Galaxy – Galaxy Europe has developed a pipeline to automatically create COVID-19 variant information and statistics from raw sequencing data generated by COVID-19 Genomics UK Consortium (COG-UK).
GCC2021 Conference Fellowships in honor of James Taylor – Apply by May 17
GCC2021 Abstract and Fellowship Submission, and Early Registration Deadlines Extended – Talks & Fellowships due 17 May; Poster/Demos due 14 June
Events
Galaxy @ 2021 Biology of Genomes- May 11.
Galaxy Training Network CoFest- May 20. Connect with the Galaxy Training Community!
Galaxy Papercuts CoFest Day: May 20- May 20. A community contribution day
Variant calling in humans, animals and plants with Galaxy- May 25. Hands on guidance on performing variant calling in polyploid organisms including humans, plants and animals. Apply by 12 May.
9th RepeatExplorer Workshop on the Application of Next Generation Sequencing to Repetitive DNA Analysis- May 25. Theoretical and practical aspects of using next generation sequencing (NGS) data for analyzing repeat composition of plant genomes.
Recent Videos
Customizeable welcome and introduction page for new Galaxy users - Galaxy Developer Round Table call
Webinar: Galaxy Resources for Tool Developers - Galaxy resources for getting your tools used.
Webinar: Building a bioinformatics platform: Lessons learned from immuneML - immuneML is a platform for the analysis of adaptive immune receptors through machine learning
Webinar: Galaxy Resources for Educators and Trainers - Resources for teaching with Galaxy
Tools for Applied Data Science Using Cloud-Based Platform - How to launch and use Galaxy within AnVIL
Blog
Galaxy Helm chart v4.0 – From dev to testing to production on the same stack.
Plant Transcriptomics Workshop: A Summary – New platform, new learners, new paradigms.
Monitoring of raw open data for SARS-CoV-2 genome surveillance – UseGalaxy.eu is now automatically collecting, and analyzing raw sequencing data published by the COVID-19 Genomics UK Consortium (COG-UK).
Tips and tricks for Galaxy – "a useful bag of tricks and tools"
GTN Smörgåsbord: A Global Galaxy Course – A report on the largest Galaxy event ever.
Careers
Bioinformatic Engineer – Institut Pasteur de Lille, Lille, France . Apply by Jun 1.
Ingénieur de Recherche Bioinformatique – Institut Pasteur de Lille, Lille, France . Apply by Sep 1.
Computational Biologist – GalaxyWorks, Baltimore (or remote), Maryland, United States
Postdoctoral Fellowships – Blankenberg Lab, Cleveland Clinic Lerner Research Institute, Cleveland, Ohio, 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
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).
immuneML - Machine learning-based analysis and classification of adaptive immune receptors and repertoires (AIRR).
ASaiM Docker Image - Tools for metagenomic and metatranscriptomic studies, hierarchically organized to orient user choice toward the best tool for a given task.
InteractoMIX - One-stop resource offering a wide range of computational analyses from proteome-wide interactomes to structure of protein complexes.
Recent Pubs
Fostering accessible online education using Galaxy as an e-learning platform - Serrano-Solano, B., Föll, M. C., Gallardo-Alba, C., Erxleben, A., Rasche, H., Hiltemann, S., Fahrner, M., Dunning, M. J., Schulz, M. H., Scholtz, B., Clements, D., Nekrutenko, A., Batut, B., & Grüning, B. A. (2021). PLOS Computational Biology, 17(5), e1008923.
A constructivist-based proposal for bioinformatics teaching practices during lockdown - Gallardo-Alba, C., Grüning, B., & Serrano-Solano, B. (2021). PLOS Computational Biology, 17(5), e1008922.
A rigorous evaluation of optimal peptide targets for MS-based clinical diagnostics of Coronavirus Disease 2019 (COVID-19) - Rajczewski, A. T., Mehta, S., Nguyen, D. D. A., Grüning, B., Johnson, J. E., McGowan, T., Griffin, T. J., & Jagtap, P. D. (2021). Clinical Proteomics, 18(1), 15.
SHAMAN: A user-friendly website for metataxonomic analysis from raw reads to statistical analysis - Volant, S., Lechat, P., Woringer, P., Motreff, L., Campagne, P., Malabat, C., Kennedy, S., & Ghozlane, A. (2020). BMC Bioinformatics, 21(1), 345.
Inverting the model of genomics data sharing with the NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL). - Schatz, M. C., Philippakis, A. A., Afgan, E., Banks, E., Carey, V. J., Carroll, R. J., Culotti, A., Ellrott, K., Goecks, J., Grossman, R. L., Hall, I., Hansen, K. D., Lawson, J., Leek, J. T., Luria, A. O., Mosher, S., Morgan, M., Nekrutenko, A., O’Connor, B. D., … Team, A. (2021). BioRxiv, 2021.04.22.436044.