de.NBI is a national, academic, and non-profit research infrastructure initiated in 2015 as a joint project of the Federal Ministry of Research, Technology and Space (BMFTR).
548 contributions
News (399)
miaDash: explore microbiome data interactively in Galaxy
The miaDash Shiny app from the Bioconductor microbiome team is now an interactive tool on usegalaxy.eu: import, analyse and visualise microbiome data without writing a line of code.
Galaxy at the EOSC Symposium 2026: Federated Workflows in Practice
A Galaxy-centric report from the EOSC symposium in Florence.
One Day, Many Tool Updates: microGalaxy Hackathon Recap
Eight contributors, one day, and a pile of outdated metagenomics tools — here is what the October 14th microGalaxy hackathon achieved!
BioFAIR Data to Discovery Single-Cell Training and CoFest
Highlights from a single-cell event in the UK and future opportunities to get involved with SPOC and BioFAIR.
microGalaxy Hackathon for Tool Development
Join the microGalaxy community on October 14th to update outdated metagenomics tools in the IUC repository!
Last Few Spots left - Galaxy Tool Development Workshop, Registration Closes 14 September
Only a handful of spots remain for the 2nd Galaxy Tool Development Workshop in Freiburg (7-9 October 2026). Registration closes on 14 September, and remote participation is available.
Updated Terms of Service for the European Galaxy Server (2026)
We have published a comprehensively revised set of Terms of Service for usegalaxy.eu and all its sub-sites. Please review the new Terms and agree to them to continue using the Service.
The European Galaxy Project Website Is Now Fully Served by the Galaxy Hub
After ten years on a Jekyll-on-GitHub setup, galaxyproject.eu is now completely powered by the Galaxy Hub — a fast, metadata-driven home that any Galaxy community can reuse.
Microbiological Data Analysis at the Galaxy Community Conference 2026 supported by the microGalaxy SIG
Microbiological Data Analysis at Galaxy Community Conference 2026, Clermont-Ferrand, France
Machine learning SIG at the Galaxy Community Conference 2026
Machine learning at Galaxy Community Conference 2026, Clermont-Ferrand, France
Galaxy Europe upgrades to Galaxy 26.1
usegalaxy.eu – the newest Galaxy release is now up and running.
Galaxy Europe at the DARIAH Annual Event
Explording Reproducible Workflows in the Arts and Humanities
My visit to Freiburg Galaxy Project team
This is a small tale about my 3 months stay in Freiburg joining Galaxy Project team.
Accurate Biomedical Classification with TabPFN on Galaxy
Leverage next-generation TabPFN models on the European Galaxy server to classify complex biomedical datasets with high accuracy.
How using collections saved my data
Why you should ask help from the Galaxy experts
usegalaxy.eu Updates to 26.0
Galaxy EU updates to 26.0 and enables new exciting features
Galaxy Metagenome Training Course 2026
Outcomes of the 2026 Metagenome Training Course
UCSC staff visit: enhancing the Genome Browser - Galaxy integration
UCSC staff and Freiburg Galaxy team members had a first meeting on deepening collaboration and integration between the Genome Browser and Galaxy.
Making Galaxy Greener with the Job Cache
Galaxy's job cache improves performance, supports large training events, and advances environmental sustainability efforts within ELIXIR-STEERS by reducing redundant tool executions
Ten Common Misconceptions About Galaxy (And Why They’re Wrong!)
We are thrilled to announce that 'Ten Common Misconceptions About Galaxy (And Why They Are Wrong!)' has just been published in PLOS Computational Biology! This paper is the result of passionate discussions, collaborative debates, and a shared commitment to clarifying what Galaxy truly is—and what it can do. Whether you are a longtime Galaxy user or new to the platform, this paper will challenge assumptions and highlight Galaxy's versatility, scalability, and impact across disciplines.
Connecting Humanities Data: Analyzing DaSCH data on Galaxy
We're excited to announce the collaboration between DaSCH, the Swiss National Data and Service Center for the Humanities, and the data analysis platform Galaxy.
Integration of the Hugging Face Hub with Galaxy
Galaxy users can now browse the Hugging Face Hub as a repository source, import models straight into their histories, and feed them into tools. A step-by-step example shows how to pull models from the Hugging Face Hub into Galaxy and then using the existing DocLayout-YOLO tool for document layout segmentation.
4th BioHackathon Germany
Training Infrastructure Feedback from Hans-Rudolf Hotz and Lucille Delisle
Teaching about galaxy and its workflow capabilities.
One framework, one workflow, many communities: Freiburg Galaxy team at EOSC Symposium 2025
Galaxy showed how 'one framework, one workflow, many communities' can run cross-disciplinary imaging analyses on the emerging EOSC Federation. Here is what we presented, with slides and video.
Tabula Sapiens and Tabula Muris Senis Atlases Now Available in Galaxy
Comprehensive Single-Cell Reference Atlases Ready for Import
Let’s write History–Galaxy at the Historikertag 2025 in Bonn
Get your historic material ready - Galaxy supports your endeavours in Digital History
Galaxy at the Conference on Research Data Infrastructure (CoRDI) 2025 in Aachen
Galactic views on the Conference on Research Data Infrastructure
Training Infrastructure as a service (TIaaS) Feedback from Dr. Janne M. Toivonen
Thanks to TIaaS, our RNA-Seq workshops run smoothly—no more delays, just effective hands-on learning.
Galaxy Workshop for Humanities and Social Sciences in Freiburg
Introducing Galaxy and Digital Humanities on site
Vizgen Postprocessing Tool (VPT) now available in Galaxy
Reprocess and refine the single-cell results of MERSCOPE experiments
Training Infrastructure Feedback from the MSc Program „Translational Medical Research“ (TMR), Medical Faculty of Mannheim, University of Heidelberg; WS 2024/25
From sequencing to R scripting—TIaaS helped us turn RNA-Seq into a hands-on learning success for future medical researchers.
Streamlining Bioinformatics Training with Galaxy TIaaS: A Wet Lab Success Story
No more setup headaches—TIaaS lets us deliver scalable, hands-on bioinformatics training that just works.
Lights, Camera... Hacking! Highlights from the Galaxy Imaging Hackathon 2025
Three days of collaborative hacking, coffee-fueled brainstorming, and community-powered innovation—Galaxy Imaging is growing, and so are its FAIR tools!
Empowering Genomics Education with Galaxy TIaaS
TIaaS and Galaxy are transforming how we teach genomics—making hands-on bioinformatics accessible to every student, no coding required.
Empowering Wet Lab Scientists with NGS Analysis Skills Without Coding Barriers
Teaching NGS to wet lab scientists got a whole lot easier once I discovered TIaaS and the Galaxy platform.
BellaVista interactive tool now available in Galaxy
Open-Source Visualization for Imaging-Based Spatial Transcriptomics
AquaINFRA, EOSC, and Galaxy: Co-Designing FAIR Services for Aqua Science
AquaINFRA project is going to use the Galaxy platform as the central component of their Virtual Research Environment (VRE).
Galaxy at the E-Science Days 2025 in Heidelberg
We are presenting Galaxy's applicability for the Humanities
Brief summary of the Research Data Management with RSpace and Galaxy meeting
Meeting Dr. Mathes from RSpace, the Galaxy Freiburg team explored new ways to streamline research data management.
Molecular Biology of Plants conference (MBP 2025)
Talk entitled DataPLANT, MAdLand, and Galaxy: Tools and Resources for Plant Research
CellxGene-VIP scRNA-seq, spatial transcriptomics, and multiome data visualization
CELLxGENE-VIP is a frontend plugin of CELLxGENE, enabling users to generate multiple QC plots in high-resolution SVG or PNG format. It can also visualize spatial transcriptomics and 10X multiome.
Information security management systems of the University of Freiburg recertified by TÜV SÜD
TÜV SÜD has recertified the University of Freiburg the international certification for information security management systems (ISMS) ISO/IEC 27001.
de.NBI / ELIXIR-DE All Hands Meeting
The Freiburg Galaxy Team participated in the de.NBI / ELIXIR-DE All Hands Meeting
Training Infrastructure Feedback from Hans-Rudolf Hotz and Lucille Delisle
We were super happy to stand in front of a group of highly motivated people to teach them galaxy and workflows.
Biohackathon Europe 2024: A successful collaborative effort to develop workflows for FAIR Image Analysis using Galaxy
At BioHackathon Europe 2024 in Barcelona, a group of FAIR enthusiasts work on development of image analysis workflows using the Galaxy.
MAdLand computational resources for the Plant community
The department of Molecular Plant Sciences presented the open, FAIR, and free tools and resources available for the plant research data analysis and data management developed in the MAdLand context.
Galaxy Community Conference 2024 - a brief summary from the Freiburg Galaxy Team!
A brief summary from the Freiburg Galaxy Team for GCC 2024
The European Galaxy Days are over...
...but we look back with a relaxed smile. Let's draw the balance!
GPU-enabled deep learning on Galaxy
Taking advantage of Galaxy's GPU computing nodes
Joining forces in EOSC: OpenAIRE and EuroScienceGateway sign Memorandum of Understanding
EuroScienceGateway and OpenAIRE team up to enhance accessibility and FAIRness of scientific data from the Galaxy project.
Stronger together: FAIR-EASE and EuroScienceGateway join forces
Two Horizon Europe projects directed toward the development and deployment of the European Open Science Cloud (EOSC)—FAIR-EASE and EuroScienceGateway (ESG)—have agreed to closely cooperate over the next three years.
UseGalaxy.eu Tool Updates for 2022-10-23
On 2022-10-23, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #354 Proteomics openmsopenpepxl was updated to 40cc19c0dbd6…
UseGalaxy.eu Tool Updates for 2022-10-16
On 2022-10-16, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #353 Proteomics openmsopenpepxl was updated to a2a842b00f9c…
UseGalaxy.eu Tool Updates for 2022-10-09
On 2022-10-09, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #352 Text Manipulation textprocessing was updated to d698c222f354…
UseGalaxy.eu Tool Updates for 2022-10-03
On 2022-10-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #351 Variant Calling bcftoolsannotate was updated to b7ea370b8f5d…
UseGalaxy.eu Tool Updates for 2022-10-02
On 2022-10-02, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #350 Proteomics openmsopenpepxl was updated to 40cc19c0dbd6…
UseGalaxy.eu Tool Updates for 2022-09-25
On 2022-09-25, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #349 Variant Calling bcftoolsannotate was updated to 8a2e296c07ef…
UseGalaxy.eu Tool Updates for 2022-09-18
On 2022-09-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-09-11
On 2022-09-11, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-09-04
On 2022-09-04, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-08-28
On 2022-08-28, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-08-21
On 2022-08-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-08-16
On 2022-08-16, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-08-15
On 2022-08-15, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-08-07
On 2022-08-07, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-07-31
On 2022-07-31, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-07-24
On 2022-07-24, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-07-19
On 2022-07-19, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-07-18
On 2022-07-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-07-10
On 2022-07-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-07-03
On 2022-07-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
UseGalaxy.eu Tool Updates for 2022-06-27
On 2022-06-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process.
Usegalaxy.eu has reached 50,000 registered users
Big thanks to everybody that has contributed to the success of UseGalaxy.eu and to each of the 50K users for using Galaxy! Next stop: 100K!
Repurposing COVID-19 pipelines for the monkeypox virus
One aim of the BY-COVID project is to build a framework enabling data from newly emerging infectious disease threats to be made rapidly and widely accessible.
Galaxy taking part @ Elixir All Hands 2022
During 6-9th of June, members of the European Galaxy team travelled to Amsterdam to join the ELIXIR All Hands meeting 2022 where we joined other colleagues from ELIXIR-DE.
UseGalaxy.eu Tool Updates for 2022-06-19
On 2022-06-19, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #332
UseGalaxy.eu Tool Updates for 2022-06-12
On 2022-06-12, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #331 Annotation goseq was updated to 43798b4caee0 spaln was updated to…
Training Infrastructure Feedback from Stefanie Dukowic-Schulze
Dr.
UseGalaxy.eu Tool Updates for 2022-06-05
On 2022-06-05, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #330 Proteomics openmsopenpepxl was updated to a2a842b00f9c…
UseGalaxy.eu Tool Updates for 2022-05-29
On 2022-05-29, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #329
UseGalaxy.eu Tool Updates for 2022-05-23
On 2022-05-23, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #328 Machine Learning sklearnclfmetrics was updated to 9bf11bbeccc3…
UseGalaxy.eu Tool Updates for 2022-05-15
On 2022-05-15, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #327 RAD-seq stacks2clonefilter was updated to cd5f98911089 stacks2cstacks…
UseGalaxy.eu Tool Updates for 2022-05-08
On 2022-05-08, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #326 Convert Formats xmlstarlet was updated to 4a9ac1df3278 Proteomics…
UseGalaxy.eu Tool Updates for 2022-05-01
On 2022-05-01, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #324 Proteomics openmsopenpepxl was updated to a2a842b00f9c…
Training Infrastructure Feedback from Hans-Rudolf Hotz and Lucille Delisle
After 2 years running the SIB "Galaxy Introduction for Life Scientists" course only online, we were super happy to stand in front of a crowd and meet again the students in person.
UseGalaxy.eu Tool Updates for 2022-04-24
On 2022-04-24, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #323
Towards a sustainable storage, enabling co-financing of public infrastructure
Research groups and networks can include their own storage into the European Galaxy server and decide about quota and data policies.
UseGalaxy.eu Tool Updates for 2022-04-17
On 2022-04-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #322 Join, Subtract and Group datamashops was updated to 419027d822d6…
[GTN news] New Tutorial Feature: Choose Your Own Tutorial
It has been a long discussed feature within the GTN Tutorial Author Community: how can we provide trainees with choice in their tutorials, and how can we as trainers not duplicate large tutorials just to show a slightly different path at one point?.
UseGalaxy.eu Tool Updates for 2022-04-10
On 2022-04-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #321 BED bedtools was updated to 07e8b80f278c FASTA/FASTQ pear was updated…
UseGalaxy.eu Tool Updates for 2022-04-03
On 2022-04-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #320 RAD-seq stacksassembleperead was updated to 6eaf0f9836c8…
UseGalaxy.eu Tool Updates for 2022-03-28
On 2022-03-28, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #319 Text Manipulation prinseq was updated to 1ee282794de3 RAD-seq…
UseGalaxy.eu Tool Updates for 2022-03-20
On 2022-03-20, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #318 ChemicalToolBox gmxeditconf was updated to d06c503b33bd gmxem was…
UseGalaxy.eu Tool Updates for 2022-03-14
On 2022-03-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #317 Extract Features lengthandgccontent was updated to e3ba567abdf5…
[GTN news] New Tutorial: VGP assembly pipeline
We are proud to announce that, as result of the collaboration with the Vertebrate Genomes Project (VGP), a new training describing the VGP assembly pipeline is now available in the Galaxy Training Network
Announcing the Workflows Community Initiative (WCI)
The Workflows Community Initiative (WCI) has lunched the new website at workflows.community.
Announcing the Workflows Community Initiative (WCI)
The Workflows Community Initiative has lunched the new website at workflows.community. The Freiburg Galaxy team is part of this Inititive to help improving computational workflows for everyone.
UseGalaxy.eu Tool Updates for 2022-03-06
On 2022-03-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #316 Proteomics openmsopenpepxl was updated to a2a842b00f9c…
UseGalaxy.eu Tool Updates for 2022-02-27
On 2022-02-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #315 Annotation legsta was updated to b469f6d53d06 Send Data enaupload was…
Machine learning in Galaxy
Artificial intelligence (machine learning and deep learning) algorithms are being increasingly applied in several fields of Bioinformatics such as drug-response and protein structure prediction, imputing missing data in single-cell gene expression, modelling evolution in biological sequences and many more.
AlphaFold now available in Galaxy
It seems the whole world is talking about AlphaFold, the AI system that predicts a protein’s 3D structure from its amino acid sequence that achieves accuracy comparable with real-life experiments.
UseGalaxy.eu Tool Updates for 2022-02-20
On 2022-02-20, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #314 Variant Calling bcftoolsannotate was updated to 403553ae19f6…
UseGalaxy.eu Tool Updates for 2022-02-14
On 2022-02-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #313 Variant Calling bcftoolsannotate was updated to 403553ae19f6…
UseGalaxy.eu Tool Updates for 2022-02-13
On 2022-02-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #312 Variant Calling bcftoolsannotate was updated to 403553ae19f6…
UseGalaxy.eu Tool Updates for 2022-02-06
On 2022-02-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #310 Variant Calling articguppyplex was updated to 372def2f8fd6…
IT security management of the University of Freiburg certified by TÜV SÜD
TÜV SÜD has awarded the University's data centre the international certification for information security management systems ISO/IEC 27001.
UseGalaxy.eu Tool Updates for 2022-01-29
On 2022-01-29, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #308 Metagenomic Analysis metabat2 was updated to 76bc4efa1aeb Annotation…
[GTN news] New Feature: Automatic RMarkdown
Further building on the work in the automatic Jupyter Notebook, we’ve now re-written the Jupyter export to be faster, and more importantly added support for R and RMarkdown!
UseGalaxy.eu Tool Updates for 2022-01-23
On 2022-01-23, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #306 GIS Data Handling xarraycoordsinfo was updated to 3e73f657a998…
Usegalaxy.eu surpassed 40.000 registered users
We are celebrating that usegalaxy.eu reached 40,000 registered users last November! Over the last year, the number of registered users has almost doubled, from 25,000 to more than 41,000 by January 2022.
New Pre-Print "Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function"
Among the 30 non-synonymous nucleotide substitutions in the Omicron S-gene are 13 that have only rarely been seen in other SARS-CoV-2 sequences.
UseGalaxy.eu Tool Updates for 2022-01-14
On 2022-01-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #304 Graph/Display Data bandage was updated to b9e31c5c01c7 circos was…
UseGalaxy.eu Tool Updates for 2021-12-17
On 2021-12-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #303 ChemicalToolBox ctbrdkitdescriptors was updated to 0993ac4f4a23…
[GTN news] Support for annotating Funding Agencies
The Galaxy Training Network will now support annotating Funding Agencies on training materials.
[GTN news] GTN Smörgåsbord 2: Tapas Edition
GTN Smörgåsbord 2: 14-18 March
A second Smörgåsbord with even more Galaxy Training
Accessible and scalable detection and identification of foodborne pathogens, a project with Biolytix and funded by EOSC-Life
Thanks to funding from EOSC-Life, the Freiburg Galaxy team will work in 2022 with Biolytix, a Swiss Small and Medium-sized Enterprise (SME) specialized in molecular biology and microbiological analyses, toward Accessible and scalable detection and identification of foodborne pathogens.
[GTN news] New Tutorials: PacBio data QC and Genome Assembly, and Genome Annotation with Funannotate
We have just finished a new collection of training material for genome assembly and annotation!
[GTN news] New FAQs: How does the GTN stay FAIR and Collaborative
The GTN does a lot of work to adhere to the best practices for FAIR training materials as set out in Garcia et al.
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
UseGalaxy.eu Tool Updates for 2021-11-27
On 2021-11-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #301 Graph/Display Data bandage was updated to b9e31c5c01c7 circos was…
UseGalaxy.eu updated to 21.09
UseGalaxy.eu has been updated to version 21.09.
An overview and statistics on the Galaxy Help Forum
From the GHelp supporting group, we thank you for the trust you place in us every day.
[GTN news] New Feature: GTN Video Library
After runnning a number of virtual training events this year (e.g.
GTN Video Library
Videos from online training events are now easier to find.
UseGalaxy.eu Tool Updates for 2021-11-21
On 2021-11-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #300 Metagenomic Analysis datamanagerbuildbrackendatabase was updated to…
4th de.NBI Cloud User meeting
The 4th de.NBI Cloud User meeting took place from 12th to 24th of November 2021. Many researchers from different bioinformatics research areas gathered to learn more about cloud computing and the de.NBI Cloud.
Biohackathon Europe 2021
Last week we had the BioHackathon Europe 2021 in Barcelona, as a hybrid event and with participants from all over the world.
Training Infrastructure feedback: FORCeS eScience course
Tools in Climate Science: Linking Observations with Modelling
UseGalaxy.eu Tool Updates for 2021-11-13
On 2021-11-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #299 Metagenomic Analysis datamanagerbuildbrackendatabase was updated to…
GTN API with OpenAPI 3 specification
Access data from the GTN in a more accessible, API based way.
UseGalaxy.eu Tool Updates for 2021-11-06
On 2021-11-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #298 Quality Control multiqc was updated to 9a913cdee30e BED bedtools was…
UseGalaxy.eu Tool Updates for 2021-10-30
On 2021-10-30, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #297 Send Data enaupload was updated to e1b3b37aa69f Nanopore…
UseGalaxy.eu Tool Updates for 2021-10-23
On 2021-10-23, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #296 Assembly bionanoscaffold was updated to 5d7c5ae1b69b abyss was…
Training Infrastructure Feedback from Dr. Theodora Tsirka
We have received feedback about TIaaS from Dr. Theodora Tsirka, during the Training School on Microbiome Sequencing and Data Analysis
UseGalaxy.eu Tool Updates for 2021-10-16
On 2021-10-16, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #295 Text Manipulation gff3rebase was updated to f7ad5e69aa60…
[GTN news] New Topic: Data Science Survival Kit
As part of our work under the Gallantries Grant we are establishing a new topic within the GTN specifically focused on Data Science skills.
New brochure from ELIXIR Germany
ELIXIR Germany has published the handout "ELIXIR GERMANY - Shaping the Bioinformatics Infrastructure for Life Sciences in Europe".
UseGalaxy.eu FTP Server Update
On 2021-10-06, the FTP server accessible through the domain ftp.usegalaxy.eu will be upgraded with a new hardware and a new configuration.
UseGalaxy.eu Tool Updates for 2021-10-02
On 2021-10-02, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #294 Proteomics openmsopenpepxl was updated to 40cc19c0dbd6…
Teaching bioinformatics through blood, mucus and tears
Watch out for that My Little Pony baby stroller.
UseGalaxy.eu Tool Updates for 2021-09-26
On 2021-09-26, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #293 Single-cell anndataimport was updated to 499059586799…
New Paper "Ready-to-use public infrastructure for global SARS-CoV-2 monitoring"
The COVID-19 pandemic is the first health crisis characterized by large amounts of genomic data.
UseGalaxy.eu Tool Updates for 2021-09-20
On 2021-09-20, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #292 Nanopore medakaconsensus was updated to fa11aa8103b2…
UseGalaxy.eu Tool Updates for 2021-09-11
On 2021-09-11, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #291 ChemicalToolBox alignit was updated to 06d9381593a4 fpocket was…
UseGalaxy.eu Tool Updates for 2021-09-04
On 2021-09-04, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #290 RAD-seq stacks2clonefilter was updated to e345aadf914f stacks2cstacks…
UseGalaxy.eu Tool Updates for 2021-08-28
On 2021-08-28, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #289 Annotation augustus was updated to 28433faa6e42 augustustraining was…
UseGalaxy.eu Tool Updates for 2021-08-21
On 2021-08-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #288 Send Data enaupload was updated to 59bb6d34fca6 Convert Formats…
UseGalaxy.eu Tool Updates for 2021-08-14
On 2021-08-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #287 Biodiversity data exploration ecologybetadiversity was updated to…
UseGalaxy.eu Tool Updates for 2021-08-07
On 2021-08-07, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #286 Annotation tbprofiler was updated to 37213cf56392 mobsuite was…
[GTN news] New Feature: a feedback page to aggregate and display feedback answers
As you have probably already seen, a feedback form is embedded on the bottom of each tutorial.
[GTN news] Accessibility Improvements
Accessibility Improvements One of our community members suggested on twitter that we support alternative formats for accessing our JavaScript based slides, as this can be difficult for users using…
UseGalaxy.eu Tool Updates for 2021-07-27
On 2021-07-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #285 Annotation busco was updated to 0d243f458b53 Proteomics msstatstmt…
UseGalaxy.eu Tool Updates for 2021-07-25
On 2021-07-25, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #284 Mapping bowtie2 was updated to a6d65b0c67af hisat2 was updated to…
UseGalaxy.eu Tool Updates for 2021-07-17
On 2021-07-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #283 ChemicalToolBox ambertoolsacpype was updated to 6ca543ec1bf8…
UseGalaxy.eu Tool Updates for 2021-07-10
On 2021-07-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #282 Text Manipulation prinseq was updated to 654b3a274ed5 Proteomics…
ownCloud and Nextcloud integration for your private data
So-called cloud storages are becoming more and more popular in academic research.
UseGalaxy.eu Tool Updates for 2021-07-03
On 2021-07-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #281 Species abundance pampacommunitymetrics was updated to 5bd7ddd7601f…
"Galaxy for microbiome via ASaiM story - From a local project to a global effort to support microbiome data analysis" - Talk at Holistic Bioinformatic Approaches used in Microbiome Research
The Bioinformatics Virtual Coordination Network (BVCN) is committed to reducing entry barriers into bioinformatics for researchers.
Women in Data Science 2021 - Perspectives in Industry and Academia - Join Bayer AG and de.NBI / ELIXIR Germany event
Last June 18th, Bayer AG (as a member of the de.NBI Industrial Forum) and de.NBI/ELIXIR Germany organized a common event entitled "Women in Data Science - Perspectives in Industry and Academia", to…
[GTN news] New Tutorial: Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
Effectively monitoring global infectious disease crises, such as the COVID-19 pandemic, requires capacity to generate and analyze large volumes of sequencing data in near real time.
Open Life Science program & the Galaxy community: involvement in OLS-3 and invitation to apply to the next cohort
Open Life Science (OLS) is an online mentoring & training program
UseGalaxy.eu Tool Updates for 2021-06-26
On 2021-06-26, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #280 Mapping minimap2 was updated to 09b53c1d4ab1 Phylogenetics pangolin…
[GTN news] New Tutorial: Visualization of RNA-Seq results with Volcano Plot in R
The Volcano plot tutorial introduced volcano plots and showed how they can be easily generated with the Galaxy Volcano plot tool.
[GTN news] New Tutorial: GitPod for contributing to the GTN
Want to contribute to the GTN without installing anything on your own computer?
UseGalaxy.eu Tool Updates for 2021-06-21
On 2021-06-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #279 Assembly hifiasm was updated to f3c89da3af16 Variant Calling…
UseGalaxy.eu Tool Updates for 2021-06-19
On 2021-06-19, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #278 Proteomics maxquant was updated to d72c96ad9a16 metaquantomedb was…
UseGalaxy.eu Tool Updates for 2021-06-12
On 2021-06-12, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #277 ChemicalToolBox ambertoolsacpype was updated to 710301bc46fa…
UseGalaxy.eu update to 21.05
UseGalaxy.eu has been updated to version 21.05.
Training Infrastructure Feedback from Abdus Salam
We have received some feedback about TIaaS from Abdus Salam: A week in Genomics Identification of Single Nucleotide Polymorphism from sequencing reads by using Galaxy server.
UseGalaxy.eu Tool Updates for 2021-06-05
On 2021-06-05, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #276 Get Data uniprotxmldownloader was updated to 12692567c7f9 Proteomics…
[GTN news] New Tutorial: Genome Annotation with Apollo
After two years, the Galaxy Genome Annotation team has finally finished their much awaited tutorial on doing Genome Annotation in Galaxy!
[GTN news] Oh no, it changed! Quick, to the archive menu.
Did you ever start teaching a GTN tutorial, only to realise something changed recently?
UseGalaxy.eu Tool Updates for 2021-05-29
On 2021-05-29, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #275 Convert Formats idpquery was updated to 51d54a9c9283 bioextbam2msa…
[GTN news] New Feature: Easy Abbreviation
Thanks to the great tutorial developed by first time contributor Erik Schill and edited by Simon Bray, we noticed that they defined a number of abbreviations and re-used those throughout their…
[GTN news] Contributing to BioBlend as a developer
The first of the developer tutorials for GCC2021 is live, first time contributor Erik Schill has produced a fantastic tutorial covering how to develop new functions in BioBlend for new APIs in Galaxy.
[GTN news] ¿Hablas español?: The first curated tutorial in Spanish!
¡El primer tutorial en español ya está disponible!
¿Hablas español?: The first curated tutorial in Spanish!
The first Spanish tutorial is live! Galaxy has always had google-translated tutorials, but we are now embarking on a project to assess the learning experience with human-translated, vs google-translated, bioinformatics tutorials.
UseGalaxy.eu Apollo Update
The GGA team has updated UseGalaxy.eu's Apollo (collaborative genome annotation editor) to 2.6.3 from 2.5.0.
UseGalaxy.eu Tool Updates for 2021-05-13
On 2021-05-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #274 RNA Analysis trinity was updated to 5b60313a6ce7 Phylogenetics…
UseGalaxy.eu Tool Updates for 2021-05-11
On 2021-05-11, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #273 BED bedtools was updated to fe5b4cb8356c Variant Calling jasminesv…
Plant Transcriptomics Workshop: A Summary
New platform, new learners, new paradigms.
Outcomes of the workshop ’SARS-CoV-2 Data Analysis and Monitoring with Galaxy’
Building capacity, both in the analysis and data management sides of SARS-CoV-2
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).
UseGalaxy.eu Tool Updates for 2021-04-26
On 2021-04-26, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #272 ChemicalToolBox gmxmd was updated to 2e28934c1d8c gmxmd was updated…
30,000 users
The European Galaxy Server has surpassed the 30,000 registered users.
UseGalaxy.eu Tool Updates for 2021-04-17
On 2021-04-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #271 Proteomics openmsopenpepxl was updated to a2a842b00f9c…
UseGalaxy.eu Tool Updates for 2021-04-14
On 2021-04-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #270 Machine Learning kerasbatchmodels was updated to 0dc3027df8f4…
UseGalaxy.eu Tool Updates for 2021-04-10
On 2021-04-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #269 ChemicalToolBox rdocksortfilter was updated to 784a9f7f079e…
Updates from the Single-Cell Community in Freiburg
The single-cell materials in the Galaxy Training Network (GTN) have once again expanded, with welcome contributions from Cristobal Gallardo and Mehmet Tekman of the Freiburg Galaxy Team, and Wendi…
Training Infrastructure Feedback from Simon Gladman
We recently used TIaaS for a couple of our national bioinformatics training workshops and it was wonderful.
UseGalaxy.eu Tool Updates for 2021-04-03
On 2021-04-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #268 NCBI Blast diamond was updated to 54f751e413f4 Proteomics…
Training Infrastructure Feedback from Dr. Fotis Psomopoulos
In November 2020 I was invited to give a lecture on RNA-Seq data analysis in the context of the graduate program on Precision Medicine of the School of Medicine at the Aristotle University of…
UseGalaxy.eu Tool Updates for 2021-03-27
On 2021-03-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #267 Annotation sistrcmd was updated to 24a7a95867b0 ChemicalToolBox…
Training Infrastructure Feedback from Dr. Ricardo Gonzalo Sanz
Recently, staff from the Statistics and Bioinformatics Unit from Vall d’Hebron Institute of Research (VHIR) were involved in two trainings where we used TIaaS resources.
How to import a workflow from the Workflow Hub and run it on remote COVID-19 data
Thanks to a great Collaboration between the Galaxy Community, Dockstore and the Workflow Hub, it is also possible to import a workflow directly into Galaxy and run it.
Training Infrastructure Feedback from Martin Čech
This has been a second time we've used this free service at ELIXIR Czech Republic and we couldn't be happier.
UseGalaxy.eu Tool Updates for 2021-03-20
On 2021-03-20, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #266 Assembly abyss was updated to fa5259cc561b rnaspades was updated to…
Training Infrastructure Feedback from Dr. Tuan Leng Tay
From 22 to 26 February 2021, I ran a full-time bioinformatics workshop during the practical “Block Week” for 23 Master of Biology students at the University of Freiburg, Freiburg im Breisgau.
UseGalaxy.eu update to 21.01
UseGalaxy.eu has been updated to 21.01, a few days before the official release.
UseGalaxy.eu Tool Updates for 2021-03-16
On 2021-03-16, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #264 Text Manipulation diff was updated to 156d0908e232 columnmaker was…
Successful use cases from EOSC-Life using Galaxy
The first round of EOSC-Life demonstrators has driven eight successful use cases, three of them using Galaxy.
UseGalaxy.eu Tool Updates for 2021-02-27
On 2021-02-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #263 Text Manipulation columnmaker was updated to 427903d47026…
Training Infrastructure Feedback from Mali Salmon-Divon
During January 2021, I led two Galaxy workshops; the first was for 20 Graduate students and lasted for five days from 9 am-2 pm.
Login via ELIXIR-AAI, Google, LinkedIn, or your ORCID iD
The ELIXIR Authentication and Authorisation Infrastructure (AAI) enables researchers to use their home organisation credentials or community or commercial identities (e.g.
UseGalaxy.eu Tool Updates for 2021-02-20
On 2021-02-20, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #262 ChemicalToolBox ctbrdkitdescriptors was updated to a1c53f0533b0…
UseGalaxy.eu Tool Updates for 2021-02-13
On 2021-02-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #261 Graph/Display Data jbrowse was updated to 8774b28235bb…
UseGalaxy.eu Tool Updates for 2021-02-06
On 2021-02-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #259 Proteomics metaquantomedb was updated to 0ed07016d668…
Galaxy Metabolomics Mini-Symposium report
next meetings are planned for March 11, May 6 and at the Galaxy Community Conference in July.
The European Galaxy server listed as an official resource on the COVID-19 Data Portal
The COVID-19 Data Portal emerged as an effort to coordinate data sharing to speed up the coronavirus research.
New hardware: More RAM
The de.NBI-Cloud located in Freiburg has been expanded with more than 11 TB of RAM.
Galaxy Admin Training with the Gallantries
Helena Rasche has written a report summarising the successful experience with Galaxy Admin Training that took place last week online.
Three articles related to COVID-19 research using Galaxy in the de.NBI brochure
Just part of how de.NBI is supporting COVID-19 research
New and updated CNV and Variant Calling tools
on UseGalaxy.eu and in the Toolshed
ISMB 2020 conference videos available on YouTube
In July 2020, the "Intelligent Systems for Molecular Biology" (ISMB) took place as a virtual conference with several Galaxy related talks and posters that are now available on YouTube.
UseGalaxy.eu Tool Updates for 2021-01-30
On 2021-01-30, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #258 Variant Calling strelkagermline was updated to 1fbe84e8a740…
Training Infrastructure Feedback from Lachlan Gray
In January 2021, we ran a bioinformatics workshop for 20 Australian Science Extension students for the SciX program at the University of New South Wales, Sydney.
UseGalaxy.eu Tool Updates for 2021-01-26
On 2021-01-26, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #256 Multiple Alignments chromeister was updated to a6d1f83c46b4 Variant…
UseGalaxy.eu Tool Updates for 2021-01-02
On 2021-01-02, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #252 hcascget-scrna hcamatrixdownloader was updated to c3c85b67d118…
The European Galaxy Server in 2020
What a shitty year! But it’s over and we hope you and your family are safe and healthy.
UseGalaxy.eu Tool Updates for 2020-12-26
On 2020-12-26, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #251 Proteomics openmsopenpepxl was updated to 40cc19c0dbd6…
UseGalaxy.eu Tool Updates for 2020-12-24
On 2020-12-24, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #250 Mothur mothuraligncheck was updated to 0399e5aeaac6 mothuraligncheck…
Open Life Science program & the Galaxy community: involvement in OLS-2 and invitation to apply to the next cohort
involvement in OLS-2 and invitation to apply to the next cohort
Training Infrastructure Feedback on the ELIXIR Belgium workshop “DDA and DIA proteomic analysis in Galaxy”
On December 3 and 4, we ran a 2-day Galaxy Proteomics data analysis workshop organized by ELIXIR Belgium.
UseGalaxy.eu update to 20.09
The Galaxy Release 20.09 was announced on the 17th of November with plenty of new features.
UseGalaxy.eu Tool Updates for 2020-11-28
On 2020-11-28, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #249 hcascutilsviz dropletutilsemptydrops was updated to fa662ca7ae7f…
Training Infrastructure Feedback from Ambre Jousselin
The past 23-25 Nov, I run a 2-day Microbial Genomics workshop for 16 master students.
Activity report of the last 5 years of the Freiburg Galaxy Team
Crucial infrastructure serving more than 22,000 researchers
UseGalaxy.eu Tool Updates for 2020-11-21
On 2020-11-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #248 Phylogenetics ete was updated to 541a2ffc01ff ete was updated to…
New hardware: More storage and GPUs
de.NBI-Cloud has extended the support to the European Galaxy Server
UseGalaxy.eu Tool Updates for 2020-11-14
On 2020-11-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #247 Assembly shasta was updated to 60573349e9ae Convert Formats…
UseGalaxy.eu Tool Updates for 2020-11-07
On 2020-11-07, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #245 Metagenomic Analysis vsearch was updated to 9495df9dd6ef Assembly…
UseGalaxy.eu Tool Updates for 2020-10-31
On 2020-10-31, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #244 hcascscmaptools scmapindexcell was updated to 640982866dfe Send Data…
The first Paper Cuts Community Fest was a success!
So we will do this again in November!
UseGalaxy.eu Tool Updates for 2020-10-24
On 2020-10-24, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #243 hcascscmaptools scmapindexcell was updated to 640982866dfe…
More than 8000 packages/containers in Bioconda/BioContainers from more than 1000 contributors
from 1000+ contributors
20,000 users
We have exciting news to share!
UseGalaxy.eu Tool Updates for 2020-10-17
On 2020-10-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #242 Proteomics openmsaccuratemasssearch was updated to 0056247c6934…
Training Infrastructure Feedback from Leighton Pritchard
Addressing challenges the global coronavirus pandemic
UseGalaxy.eu Tool Updates for 2020-10-10
On 2020-10-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #238 Assembly colibreadlordec was updated to 435a98f01ae9 novoplasty was…
The Community Against COVID-19
The Freiburg Galaxy team has been interviewed recently regarding the research on the SARS-CoV-2 genome.
UseGalaxy.eu Tool Updates for 2020-10-03
On 2020-10-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #237 hcascscmaptools scmappreprocesssce was updated to 10c060627ef9…
UseGalaxy.eu Tool Updates for 2020-09-26
On 2020-09-26, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #235 Variant Calling cutesv was updated to c0f8fe52948e plink was updated…
Remote training using Galaxy
Lessons learned from our ELIXIR Galaxy Machine Learning Workshop
UseGalaxy.eu Tool Updates for 2020-09-12
On 2020-09-12, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #232 hcascget-scrna retrievescxa was updated to 72b6e1747e37 Assembly…
The ELIXIR tools platform for COVID-19 research at the ECCB2020
The 19th European Conference on Computational Biology is now over.
UseGalaxy.eu Tool Updates for 2020-09-05
On 2020-09-05, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #231 Nanopore medakaconsensus was updated to 84dcccebad3d…
New Paper "No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics"
The scientific efforts to fight the current COVID-pandemic have yielded plenty of data.
New Paper "pyGenomeTracks: reproducible plots for multivariate genomic data sets"
We are happy to announce the publication of pyGenomeTracks (PGT) in Bioinformatics.
UseGalaxy.eu Tool Updates for 2020-08-29
On 2020-08-29, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #230 ChemicalToolBox fastpca was updated to d9f8cc3258f9 mdanalysisangle…
3 steps to get your tool into Galaxy - A real-world example
A real-world example
UseGalaxy.eu Tool Updates for 2020-08-22
On 2020-08-22, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #229 Convert Formats genebedmaftofasta was updated to f24a9ff28d3c…
UseGalaxy.eu Tool Updates for 2020-08-15
On 2020-08-15, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #228 hcascscmaptools scmapgetstdoutput was updated to 0d713384d8d8…
UseGalaxy.eu Tool Updates for 2020-08-08
On 2020-08-08, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #227 Assembly idbahybrid was updated to 5ece301faf6b idbatran was updated…
UseGalaxy.eu Tool Updates for 2020-08-01
On 2020-08-01, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #226 hcascscmaptools scmapindexcell was updated to 0f5e46b0981a Convert…
UseGalaxy.eu update to 20.05
We've updated our Galaxy server to version 20.05.
Climate Science at BCC2020
July has been a very busy month for Galaxy Climate
Training Infrastructure Feedback from Rodrigo Ortega Polo
An introductory workshop to bacterial whole-genome sequence analysis was delivered from December 9-12, 2019 in the Lethbridge Research and Development Centre (Agriculture and Agri-Food Canada).
UseGalaxy.eu Tool Updates for 2020-07-25
On 2020-07-25, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #225 FASTQ Quality Control fastqe was updated to a252d8415583 Metagenomic…
Computational chemistry at BCC2020
Several sessions were related to computational chemistry during this year's BCC.
UseGalaxy.eu Tool Updates for 2020-07-22
On 2020-07-22, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #224 Expression Tools composetextparam was updated to e188c9826e0f FASTQ…
The landscape of SARS-CoV-2 RNA modifications
Studying the RNA modifications of SARS-CoV-2 to improve understanding of SARS viruses
UseGalaxy.eu Tool Updates for 2020-07-18
On 2020-07-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #223 hcascscmaptools scmapindexcell was updated to 441df83ffc7c Proteomics…
UseGalaxy.eu Tool Updates for 2020-07-13
On 2020-07-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #222 hcascseurattools seuratdimplot was updated to e7e01a7fea38…
Intuitive, reproducible high-throughput molecular dynamics in Galaxy: a tutorial
Update: The paper is now published in the Journal of Cheminformatics.
Processing of Single Cell RNA-Seq Data with Galaxy
We will be hosting a single-cell RNA-seq training workshop at BCC, on both July 17th and July 19th for BCC 2020.
CellProfiler now available in Galaxy
Several modules of the popular image analysis tool CellProfiler are now available in the Galaxy ToolShed, thanks to ELIXIR’s and EuroBioimaging’s contribution to EOSC-Life WP2.
UseGalaxy.eu Tool Updates for 2020-06-20
On 2020-06-20, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #221 FASTA/FASTQ umitoolscount was updated to 933220bbc2ae Proteomics…
UseGalaxy.eu Tool Updates for 2020-06-16
On 2020-06-16, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #220 Variant Calling lofreqalnqual was updated to e0e2fd665102 lofreqcall…
UseGalaxy.eu Tool Updates for 2020-06-13
On 2020-06-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #219 hcascutilsviz ucsccellbrowser was updated to 8da642e17794 Convert…
Training Infrastructure Feedback from Marcel Schulz
Galaxy helps virtual teaching!
UseGalaxy.eu Tool Updates for 2020-06-06
On 2020-06-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #218 hcascmonocle3tools monocle3create was updated to 46a523dc303f…
UseGalaxy.eu Tool Updates for 2020-05-30
On 2020-05-30, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #216 Variant Calling lofreqalnqual was updated to e61c9ac190ad lofreqcall…
UseGalaxy.eu Tool Updates for 2020-05-24
On 2020-05-24, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #213 Evolution iqtree was updated to 973a28be3b7f Climate Analysis…
UseGalaxy.eu Tool Updates for 2020-05-15
On 2020-05-15, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #211 hcascscmaptools scmapgetstdoutput was updated to 39370cc49ae7…
UseGalaxy.eu Tool Updates for 2020-05-02
On 2020-05-02, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #209 hcascscmaptools scmapindexcell was updated to 640982866dfe…
UseGalaxy.eu Tool Updates for 2020-04-25
On 2020-04-25, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #208 hcascscmaptools scmapindexcell was updated to 5593b0744de9…
Multi-omics Visualization Platform: An extensible Galaxy plug-in for multi-omics data visualization and exploration
a visualization plug-in that extends Galaxy-P’s advantages into the visualization of large, complex datasets
UseGalaxy.eu Tool Updates for 2020-04-18
On 2020-04-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #207 RNA Analysis chiracollapse was updated to dd2b0bde0be1 chiraextract…
Integrative meta-omics analysis
Metagenomics, Metatranscriptomics, Metaproteomics
UseGalaxy.eu Tool Updates for 2020-04-11
On 2020-04-11, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #205 Proteomics pyprophetexport was updated to 2bc6bbf651b9…
UseGalaxy.eu Tool Updates for 2020-04-04
On 2020-04-04, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #203 Metagenomic Analysis staramr was updated to aeaa20b96ef2 Assembly…
UseGalaxy.eu Tool Updates for 2020-03-28
On 2020-03-28, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #198 Proteomics pyprophetexport was updated to bd693a71a50b pyprophetmerge…
UseGalaxy.eu Tool Updates for 2020-03-21
On 2020-03-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #194 Variant Calling lofreqalnqual was updated to 435b157bed6d lofreqcall…
UseGalaxy.eu Tool Updates for 2020-03-14
On 2020-03-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #192 RNA Analysis chiracollapse was updated to 7587218b4253 chiraextract…
UseGalaxy.eu Tool Updates for 2020-03-10
On 2020-03-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #190 ChemicalToolBox ctbrdkitdescriptors was updated to 414edd9ea77d…
UseGalaxy.eu Tool Updates for 2020-03-07
On 2020-03-07, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #189 Epigenetics ewastools was updated to fef50103f6b3 hcascutilsviz…
de.NBI Training Infrastructure Feedback from Helena Rasche
and was wildly successful
UseGalaxy.eu Tool Updates for 2020-02-29
On 2020-02-29, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #188 Epigenetics ewastools was updated to 369fef559cfc Proteomics…
UseGalaxy.eu Tool Updates for 2020-02-21
On 2020-02-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #185 Phylogenetics hyphyabsrel was updated to f73435dc282b hyphybgm was…
UseGalaxy.eu Tool Updates for 2020-02-17
On 2020-02-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #182 Epigenetics seacr was updated to c8ff96b9fb97 Phylogenetics…
12,000 users - 6,900,000 jobs - 13,300,000 datasets
In the next days we will attend our yearly de.NBI SAB meeting.
Training Infrastructure Feedback from Beata Scholtz
I am an associate professor at the Faculty of Medicine, University of Debrecen, Hungary, and I have been using the Galaxy platform to teach the basics of RNA-seq data analysis to 2nd year Molecular…
CORBEL staff visit program: Integration IDR - Galaxy
As part of the training program in Work Package 9, CORBEL offers staff visits across research infrastructures.
UseGalaxy.eu Tool Updates for 2020-02-08
On 2020-02-08, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #181 Data source idrdownloadbyids was updated to 57aa9597cd31 Assembly…
Accessible and reproducible mass spectrometry imaging data analysis in Galaxy
Congratulation to our friend and colleague Melanie Föll from the University of Freiburg Oliver Schilling lab to her great article on the analysis of mass spectrometry imaging data.
UseGalaxy.eu Tool Updates for 2020-02-01
On 2020-02-01, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #178 Evolution iqtree was updated to 973a28be3b7f Assembly miniasm was…
ELIXIR tools platform meeting and Container SIS meeting in Paris
This week we joined the ELIXIR tools platform meeting in Paris.
UseGalaxy.eu Tool Updates for 2020-01-25
On 2020-01-25, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #177 Statistics scipysparse was updated to a84e6ffd3735 Assembly…
Outreach - Invited Talk for Introducing Galaxy to Uniklinik Freiburg
We were invited by Dr.
Training Infrastructure Feedback from Denny Popp
For a 1-day course on long read sequencing for (meta)genomics I was looking for a powerful, easy-to-use computational infrastructure.
UseGalaxy.eu Tool Updates for 2020-01-18
On 2020-01-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #175 Graph/Display Data plotlymlperformanceplots was updated to…
UseGalaxy.eu Tool Updates for 2020-01-11
On 2020-01-11, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #174 Metagenomic Analysis cataddnames was updated to 8dfc90f35aba catbins…
New Paper "Survey of metaproteomics software tools for functional microbiome analysis"
Our metaproteomics and microbiomics communities are constantly growing.
Laborjournal article about Galaxy
The Laborjournal is a German journal for scientists for complex methods and news written in easily understandable language.
118 new plant reference genomes and transcriptomes added to Galaxy Europe!
In cooperation with our ELIXIR partner in Belgium, the VIB, we have recently added more than 100 new plant reference genomes and transcriptomes to the European Galaxy server.
UseGalaxy.eu Tool Updates for 2020-01-04
On 2020-01-04, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #173 Metabolomics w4mclassfilter was updated to 87ec0d3c2266
UseGalaxy.eu Tool Updates for 2019-12-28
On 2019-12-28, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #172 Variant Calling bcftoolscall was updated to 5801eff9ac7e bcftoolscnv…
UseGalaxy.eu Tool Updates for 2019-12-21
On 2019-12-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #171 Convert Formats graphicsmagickimagemontage was updated to…
UseGalaxy.eu Tool Updates for 2019-12-14
On 2019-12-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #169 Statistics graphembed was updated to f28678233baf Assembly abyss was…
Training Infrastructure Feedback from the Gallantries Project
The Gallantries Project recently had their final meeting in Thessaloniki, Greece!
UseGalaxy.eu Tool Updates for 2019-12-07
On 2019-12-07, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #168 FASTA/FASTQ umitoolscount was updated to 276b4111b253 hcascsccaftools…
Training Infrastructure Feedback from Ambre Jousselin
At the end of November, we organized a 2-day workshop (reads quality, short and long reads genome assembly, reads mapping and RNAseq differential gene expression) for 12 master students.
10,000 users, 6,370,000 jobs and 11,900,000 datasets
A big thank you to all our users and people that have contributed to this project!
Training Infrastructure Feedback from Giovanni Widmer
Hi Galaxy team!
The de.NBI / ELIXIR-DE training platform - Bioinformatics training in Germany and across Europe within ELIXIR
The Galaxy Team is part of the German Network of Bioinformatics infrastructure (de.NBI) and ELIXIR, both networks have a strong focus on training and education.
GraphClust2: Annotation and discovery of structured RNAs with scalable and accessible integrative clustering
Going back to the roots of the Prof.
UseGalaxy.eu Tool Updates for 2019-11-30
On 2019-11-30, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #167 Assembly abyss was updated to f4fb67b97a63 Convert Formats…
UseGalaxy.eu Tool Updates for 2019-11-23
On 2019-11-23, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #165 hcascscanpytools scanpyfiltergenes was updated to 0bba942e0869…
UseGalaxy.eu Tool Updates for 2019-11-15
On 2019-11-15, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #161 ChemicalToolBox autodockvina was updated to 65ffed035ca8…
UseGalaxy.eu Tool Updates for 2019-11-10
On 2019-11-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #158 Statistics createtoolrecommendationmodel was updated to 12764915e1c5…
UseGalaxy – a bioinformatic shopping mall from Sivakumar Prakash
Sivarkumar is working at the Centre for Cellular and Molecular Biology (CCMB) on de novo genome assembly of Capparis urophylla.
RNA-Seq Training feedback from Simon Moxon
I am an associate professor at the University of East Anglia in the UK and I have been wanting to teach undergraduate biology students some practical skills in next generation sequencing analysis…
Training update from Tomas Klingström
Agricultural Sciences collaboration between Swedish University of Agricultural sciences researchers and the Agricultural Research Council in South Africa
UseGalaxy.eu Tool Updates for 2019-10-19
On 2019-10-19, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #146 Gemini Tools geminiactionablemutations was updated to a0379503290f…
UseGalaxy.eu Tool Updates for 2019-10-17
On 2019-10-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #145 HCA-Single Cell retrievescxa was updated to cc21614b6693…
Training Infrastructure Feedback from Charles Girardot
In early September this year, the European Molecular Biology Laboratory (EMBL) organized a week long course entitled Chromatin Signatures During Differentiation: Integrated Omics.
UseGalaxy.eu Tool Updates for 2019-10-12
On 2019-10-12, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #143 Climate Analysis climatestripes was updated to fec3147b0206 Convert…
UseGalaxy.eu Tool Updates for 2019-10-05
On 2019-10-05, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #141 Epigenetics bwameth was updated to 29bdbc353f20 Convert Formats…
UseGalaxy.eu Tool Updates for 2019-09-29
On 2019-09-29, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #140 Graph/Display Data mummer was updated to d9f3d4779507 Statistics…
UseGalaxy.eu Tool Updates for 2019-09-21
On 2019-09-21, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #138 Statistics kerasmodelbuilder was updated to 5f39cff2a372…
8,000 users, 6,000,000 jobs and 11,000,000 datasets
This week we are celebrating already 11 million datasets, 6 million jobs run on UseGalaxy.EU and 8 thousand users.
The European Galaxy server is part of the EOSC marketplace
Since a few days, the European Galaxy server is part of the European Open Science Cloud marketplace.
UseGalaxy.eu Tool Updates for 2019-09-14
On 2019-09-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #137 Statistics kerasbatchmodels was updated to ed4d31f47d65…
UseGalaxy.eu Tool Updates for 2019-09-07
On 2019-09-07, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #136 Epigenetics moabs was updated to 26d7ec4af119 Operate on Genomic…
First ATACseq training material!
Many people are waiting for it!
UseGalaxy.eu Tool Updates for 2019-08-31
On 2019-08-31, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #135 Statistics createtoolrecommendationmodel was updated to 9bf25dbe00ad…
UseGalaxy.eu Tool Updates for 2019-08-24
On 2019-08-24, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #134 Phylogenetics hyphyabsrel was updated to 5c87e4907e08 hyphybgm was…
UseGalaxy.eu Tool Updates for 2019-08-18
On 2019-08-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #133 Annotation abricate was updated to 862f5a86854d goseq was updated to…
UseGalaxy.eu Tool Updates for 2019-08-10
On 2019-08-10, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #128 Epigenetics bwameth was updated to a6ea26c1f225 Mapping hisat2 was…
Galaxy Community Conference - a brief summary!
A brief summary
The Galaxy Genome Annotation Project - Scaling Genome Annotation for the Masses
Scaling Genome Annotation for the Masses
UseGalaxy.eu Tool Updates for 2019-08-03
On 2019-08-03, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #128 RNA Analysis cummerbund was updated to f3012521ea79 deseq2 was…
UseGalaxy.eu Tool Updates for 2019-07-27
On 2019-07-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #127 Statistics mine was updated to 5e2c89443c44 Convert Formats…
7,000 users and 10,000,000 datasets
This week we are celebrating 10 million datasets and 7 thousand users.
UseGalaxy.eu Tool Updates for 2019-07-19
On 2019-07-19, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #123 Mothur mothurcountseqs was updated to ecbd9ed733e6 Phylogenetics…
UseGalaxy.eu Tool Updates for 2019-07-13
On 2019-07-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #122 Epigenetics suitedeeptools was updated to 44e7a5b3be82 Convert…
UseGalaxy.eu Tool Updates for 2019-07-06
On 2019-07-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #121 HCA-Single Cell hcamatrixdownloader was updated to c127d4124583…
UseGalaxy.eu Tool Updates for 2019-06-27
On 2019-06-27, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #114 HCA-Single Cell dropletutilsread10x was updated to d62a9aa0411e…
UseGalaxy.eu Tool Updates for 2019-06-21
usegalaxy.eu is getting ready for GCC 2019
UseGalaxy.eu Tool Updates for 2019-06-15
On 2019-06-15, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #108 Picard picard was updated to 7d34178f2812 Proteomics…
Native support for Elixir-AAI in Galaxy v.19.05
the European Galaxy Server hosted by Elixir Germany is now ready to accept logins from users using their Elixir AAI identity for authentication..
Training Infrastructure Feedback from Nevena Veljkovic
In the spring semester, the Molecular Biology, a three-year PhD programme by the Faculty of Biology in Belgrade offered an elective course Genomics.
UseGalaxy.eu Tool Updates for 2019-06-08
On 2019-06-08, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #107 Picard picard was updated to b9fbec5ac6b2 Phylogenetics phyml was…
UseGalaxy.eu Tool Updates for 2019-06-06
On 2019-06-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build 106 Mothur mothursffinfo was updated to 12507ed33710 Qiime suiteqiime was…
Queue changes during GCC
As Freiburg is hosting the Galaxy Community Conference this year, we will be allocating a lot of extra resources for training and events during the conference.
Galaxy Workshop registration open!
The registration for our next Galaxy Workshop on HTS data analysis from 23-27 September 2019 in Freiburg is open.
New Paper "The RNA workbench 2.0: next generation RNA data analysis"
A new significant update of our RNA workbench was released!
UseGalaxy.eu Tool Updates for 2019-04-23
On 2019-04-23, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #87 Gemini Tools geminiactionablemutations was updated to 3630a6e624d4…
UseGalaxy.eu Tool Updates for 2019-04-06
On 2019-04-06, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #85 Gemini Tools geminiactionablemutations was updated to 3630a6e624d4…
We passed the 5,000,000th job and 5,000 users!
This week we are celebrating 5 million jobs and 5 thousand users.
New Paper "Biomolecular Reaction and Interaction Dynamics Global Environment (BRIDGE)
In collaboration with our cooperation partner at the Scientific Computing Research Unit, University of Cape Town, we have recently published "Biomolecular Reaction and Interaction Dynamics Global…
New Paper "The Chimera and the Cyborg"
Our admin Helena, in collaboration with the Rechenzentrum Uni Freiburg, has published "The Chimera and the Cyborg: Hybrid Compute: In vivo HPC, Cloud and Container Implementations".
Empowering the annotation and discovery of structured RNAs with scalable and accessible integrative clustering
Our paper "Empowering the annotation and discovery of structured RNAs with scalable and accessible integrative clustering" is now available as preprint on bioRXiv.
Tool Quest: Do you know the answer?
Last week we got a request from on of our users with a tricky question: I need a tool that: - reads two files (parent, and subset) - I need to pick out random lines from the parent - but it should…
Vote for the Training during the next Galaxy Community Conference
The Galaxy Community Conference starts with training but also continues with training throughout the conference.
Galaxy enhances Introduction to Genomics as part of Master program in Belgrade, by Nevena Veljkovic
This semester, the Faculty of Biology at the University of Belgrade offered for the first time an elective master course Introduction to Genomics which included several hands-on sessions on the…
Another European CVMFS mirror is online
The CernVM File System (CVMFS) provides a scalable, reliable and softare and data distribution service.
Galaxy HTS Workshop 25.2.-1.3.2019 - fully booked
Our next Galaxy Workshop on HTS data analysis from 25.2.-1.3.2019 in Freiburg is full.
New hardware: 8 x 1 TB memory nodes
Today we activated our brand new hardware.
Enthusiastic Response to the First ELIXIR-NL Galaxy Training Course in the Netherlands
An ELIXIR-NL training course entitled Bioinformatics for Translational Medicine using Galaxy: see it, do it, teach it!
Training Infrastructure Feedback from Maria Doyle
We recently had the privilege of using the usegalaxy.eu's new Training infrastructure as a Service (TIaaS) for our course on "Introduction to Galaxy and RNA-seq" at the Peter MacCallum Cancer Centre…
New Article ’Selbst ist der Forscher: Big-Data-Analysen leicht gemacht’
"Selbst ist der Forscher: Big-Data-Analysen leicht gemacht", a new German article written by The Freiburg Galaxy Team about our service and our work was published in the Laborpraxis.
New Article ’Datenanalyse mit dem Galaxy Server’
"Datenanalyse mit dem Galaxy Server", a German article written by The Freiburg Galaxy Team about our service and our work was published in the Laborjournal.
Galaxy on de.NBI cloud now with more power
We are one out of five German de.NBI cloud centers that provides storage and compute resources for the life science community.
Bioconda: sustainable and comprehensive software distribution for the life sciences
3 years ago the Galaxy community evaluated mechanism to make software installation more robust and we joined the Bioconda community, to fix the software deployment problem once and for all.
Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization
HiCExplorer - a tool suite for reproducible Hi-C data analysis, quality control and visualization was published a few days ago.
Galaxy Workshop registration open!
The registration for our next Galaxy Workshop on HTS data analysis from 17-21 September 2018 in Freiburg is open.
Galaxy User Conference: second and last day
The Galaxy User Conference in Freiburg just ended!
Freiburg Galaxy becomes useGalaxy.eu
As part of our ongoing growth and development, Freiburg Galaxy is becoming useGalaxy.eu What Changes You will be able to access the galaxy instance via https://usegalaxy.eu in addition to the old,…
Galaxy User Conference: a successful first day
More than 120 participants joined us for the first Galaxy User Conference in Freiburg.
ELIXIR Galaxy community kick-off meeting
The ELIXIR Galaxy community kick-off meeting was held here in Freiburg.
Program for the Galaxy User Conference
Our preliminary program for the Galaxy User Conference is now ready.
Next Galaxy Workshop on HTS data analysis in September 2018
Because many people already asked: The autumn Galaxy Workshop on high-throughput data analysis will take place from 17.-21.9.2018 here in Freiburg.
Galaxy Workshop - Registration is closed!
Due to the high number of applicants for the next Galaxy workshop from 26.02.-02.03.2018, we close the registration.
New Paper "Combinatorial omics analysis reveals perturbed lysosomal homeostasis in collagen VII-deficient keratinocytes"
"Combinatorial omics analysis reveals perturbed lysosomal homeostasis in collagen VII-deficient keratinocytes" by Kerstin Thriene et al.
ELIXIR Galxy Admin workshop in Oslo.
We had a very nice Galaxy Admin workshop in Oslo.
Our paper about the Galaxy Training material and community as a preprint on bioRXiv
Our paper "Community-driven data analysis training for biology" about the Training material we are developing with the Galaxy Training Network is now available as preprint on bioRXiv.
Registration open for Galaxy HTS data analysis workshop 26.02.-02.03.2018
We are offering another Galaxy workshop on HTS data analysis.
Galaxy 17.09 released!
We just updated our Galaxy server to version 17.09!
Workshop on Provisioning of Virtual Research Environments and Data Management
(from https://www.rz.uni-freiburg.de/rz/aktuell/vice-ws) The ViCE project team organized together with the CiTAR and the deNBI project a two day workshop and hackathon on Virtual Research…
Talk @ 5th early-stage researchers Next-Generation Sequencing Symposium
Joachim presented the developments of HiCExplorer at the 5th early-stage researchers Next-Generation Sequencing Symposium in Heidelberg.
Galaxy Training infrastructure @ de.NBI Symposium
During the de.NBI Symposium 2017, Bérénice presented the poster "Building an open, collaborative, online infrastructure for bioinformatics training".
Our paper about BioConda on bioRxiv
Our paper "Bioconda: A sustainable and comprehensive software distribution for the life sciences", written with the great and big BioConda community, is now available as preprint on bioRXiv.
Helping at the Software Carpentry workshop @ EMBL Heidelberg and Talk @ de.NBIer
Bérénice was helping Toby Hodges, Malvika Sharan and the other instructors for the Software Carpentry workshop organized at EMBL in Heidelberg.
MetaboFlow meeting (training and hackathon)
Björn participated to the Wellcome Trust funded MetaboFlow meeting (training and hackathon) in Birmingham.
Search and get data from ENA with ENASearch
We added to the instance ENASearch, a tool for interacting with ENA's API.
Galaxy Community Conference (GCC)
Clemens, Björn and Bérénice were participating in the Galaxy Community Conference GCC training: On 26th and 27th June, they participated to the hackathons.
Events (149)
Workshop on high-throughput sequencing data analysis with Galaxy
This course introduces scientists to the data analysis platform Galaxy
Introduction to the Data Analysis Platform Galaxy (in German)
microGalaxy Hackathon for Tool Development
Join the microGalaxy community on October 14th to update outdated metagenomics tools in the IUC repository!
The 2nd Galaxy Tool Development Workshop - Now Open to the wider Community!
Join us in Freiburg to learn how to build, test, and publish your own tools for the Galaxy platform - hands-on, beginner-friendly, and led by experienced Galaxy developers
microGalaxy / Microbiology Community Meeting
Join us on September 9th to explore how BioDIGs is collaboratively bridging soil microbiomes, the environment, and health and how we can collaborate!
Galaxy at the DARIAH Annual event
Enter the Galaxy: How to leverage the open source platform Galaxy for the Digital Humanities and Social Sciences
DOMPS SYMPOSIUM 2026
The use of AI in biological research
Galaxy Metagenome Training Course 2026
Join us online in the 2026 Metagenome Training Course
Galaxy Metagenome Training Course 2026
Join us online in the 2026 Metagenome Training Course
Practical Variant Effect Prediction with Deep Mutational Scanning Data
A webinar in the de.NBI & ELIXIR-DE and GHGA knowledge series
Galaxy for analysis of human health data
A webinar in the de.NBI & ELIXIR-DE and GHGA knowledge series
Introducing Galaxy Tools and Workflows for the University Library Freiburg
2025 Galaxy Admin Training
Learn how to set up your own production quality Galaxy server
FAIRyMAGs Hybrid Hackathon 2025: Optimising Metagenomics Assembled Genomes building 🚀
This 4-day hybrid hackathon aims to optimize Metagenomics Assembled Genomes Building workflows
European Galaxy Days (EGD)
European Galaxy Days meeting in Autumn 2025
Workshop - Introduction to Galaxy for Digital Humanities and Research Data Management
Join us for our workshop introducing Galaxy for Digital Humanities and Research Data Management in Freiburg
Tools Platform and Single Cell Omics: ’Bring Your Workflow’ to WorkflowHub
Discover how to make your workflows FAIR, citable, and shareable at this hands-on ELIXIR event with WorkflowHub and Single Cell Omics experts.
Galaxy Europe presents at the “Data Snacks” Series – Presentation by Dr. Sanjay Kumar Srikakulam
Discover how Galaxy simplifies data analysis and management across scientific fields during the next Data Snacks session!
Workshop on high-throughput sequencing data analysis with Galaxy
This course introduces scientists to the data analysis platform Galaxy. The course is a beginner course; there is no requirement of any programming skills.
Research Data Management with RSpace and Galaxy - Talk and Q&A
Discover how RSpace's open-source solutions promote innovation and collaboration in research data management (RDM).
microGalaxy Meets IWC - A Hackathon for microbial data analysis workflow FAIRification
One-day hackathon focused on integrating, refining, and FAIRifying microbial data analysis Galaxy workflows within the Intergalactic Workflow Commission (IWC), enhancing their accessibility, reusability for the microbiology community
Workshop on high-throughput sequencing data analysis with Galaxy
This course introduces scientists to the data analysis platform Galaxy. The course is a beginner course; there is no requirement of any programming skills.
Ask Us Anything about Galaxy live webinar
The European Galaxy Team offers a Q&A session for all users
Workshop on high-throughput sequencing data analysis with Galaxy
This course introduces scientists to the data analysis platform Galaxy. The course is a beginner course; there is no requirement of any programming skills.
de.NBI: Galaxy Microbial Genomics Course - 2024
This course will provide an overview of the field of genomics and how to use the Galaxy platform for genome analysis, with the main focus on the assembly and annotation of bacterial genomes.
Introduction to Galaxy and the European Galaxy Server - Talk
We present the Galaxy project and the European Galaxy Server with its features and applications for scientists
de.NBI / RTG2355 Galaxy Training Course - RNAseq Analysis
Joint training event of de.NBI and RTG2355 about RNAseq Analysis
Hackathon - Improving the annotation of Galaxy resources for microbial data analysis and beyond
This hackathon aims to improve the annotation of Galaxy resources for microbial data analysis and beyond
Workshop on High-Throughput Data Analysis with Galaxy
This course introduces scientists to the data analysis platform Galaxy. The course is a beginner course; there is no requirement of any programming skills.
European Galaxy Days (EGD)
European Galaxy Community meeting in Autumn
Women in Data Science 2022 - Perspectives in Industry and Academia with Focus on Life Sciences
Galaxy HTS data analysis workshop for CRC 1425, CRC 992 and MeInBio members
Workshop on high-throughput data analysis. This is an online course and is limited to the members CRC 1425, CRC 992 and MeInBio.
SARS-CoV-2 Data Analysis and Monitoring with Galaxy
...upload viral sequencing data, call all variants, create a variety of reports and create consensus alignments...
SARS-CoV-2 Data Analysis and Monitoring with Galaxy
SARS-CoV-2 Data Analysis and Monitoring with Galaxy
...upload viral sequencing data, call all variants, create a variety of reports and create consensus alignments...
Utilization of a Galaxy-based workflow to support decision making in molecular cancer diagnostics
NFDI4BIOIMAGE community meeting 2021
Introduction to Galaxy - a web-based platform for bioinformatics analysis
ELIXIR 2021 All Hands
Galaxy and Jupyter for RNA-Seq and complex data analyses
Next generation sequencing for RNA-Seq and Epigenetics
Speed up your data analysis with Galaxy: Features no one knows about
Galaxy bridge to Jupyter notebooks and RStudio
Jupyter Notebooks and RStudio in combination with Galaxy workflows
Processing thousands of datasets simultaneously
Processing thousands of datasets simultaneously
Galaxy collections and advanced collections features
Advanced Galaxy workflow features
From parameter sweeping to automatic reports
GTN CoFest & Galaxy Paper Cuts
DRS, long-read-sequencing, proteomics and more - An update to recent COVID-19 workflow developments
Viral Beacon and Galaxy variant workflows
Insights from selection analysis of complete genomes and read-level data
Supporting the COVID-19 Data portal: viral data cleaning from human reads and submission to ENA
Importance of (open) infrastructures in responding to a pandemic
COVID-19 analysis in Galaxy: Lessons learned and introduction to the series
Die Galaxy-Plattform zur Analyse lebenswissenschaftlicher Daten
Galaxy Training Network day - (online) CoFest and community call
Galaxy Training Network day - (online) CoFest and community call
Diving into the Galaxy: an accessible and reproducible workbench with an European-wide distributed compute network
Diving into the Galaxy: an accessible and reproducible workbench with an European-wide distributed compute network
Best-practices, tools, workflow development, transparent and reproducible research
RNA-seq Analysis using Galaxy
Galaxy Training on Functionally Assembled Terrestrial Ecosystem Simulator (FATES)
Learn about Galaxy and how to compose and execute repeatable and reproducible modelling workflow with FATES for improving climate models.
Machine Learning in Bioinformatics using Galaxy at ISCB-LA 2020
3rd de.NBI Cloud User Meeting Online
The ELIXIR Tools Platform - solutions for COVID-19 research
Workshop on FAIR Computational Workflows
An Introduction to Whole Exome Data Analysis using Galaxy
Machine Learning & Omics data at ECCB2020
High-throughput molecular dynamics with Galaxy
Processing of Single Cell RNA-Seq Data with Galaxy
Reference data with CVMFS and remote jobs with Pulsar
Introduction to Machine Learning at BCC2020
Biocontainers at the nf-core Hackathon
Processing of Single Cell RNA-Seq Data with Galaxy
Machine Learning in Bioinformatics using Galaxy at IISA2020
Galaxy-ELIXIR Webinar/Workshop: Machine Learning using Galaxy
Register by 16 June
Galaxy-ELIXIR Webinar 5: Behind the scenes - Global Open Infrastructures at work
Galaxy-ELIXIR Webinar 4: Evolution of the Virus
Online Galaxy Introduction Workshop
Galaxy-ELIXIR Webinar 3: Cheminformatics - Screening of the main protease
Galaxy-ELIXIR Webinar 2: Genomics/Variant Calling
Galaxy-ELIXIR Webinar 1: Introduction to Galaxy and the Galaxy workflows for SARS-CoV-2 data analysis
Online Galaxy Introduction Workshop
Introduction to Machine Learning using Galaxy
Introduction to Machine Learning using Galaxy (Postponed)
EVENT POSTPONED - Galaxy single cell RNA-seq data analysis workshop in Freiburg
Galaxy single cell RNA-seq data analysis workshop
Galaxy single cell RNA-seq data analysis workshop (Postponed)
WirVsVirus Hackathon
Looking for bold and innovative ideas that will help society to show solidarity now and emerge stronger
Galaxy @ ABRF 2020
Single Cell, and Functional Characteristics of Microbiomes
Galaxy HTS data analysis workshop in Freiburg
1-week full-day hands-on workshop on analysis of RNA-seq, ChIP-seq, Exome-seq, MethylC-seq data
Talk at the ELIXIR Open Day
Introduction to Galaxy
Galaxy Training Network day - (online) CoFest and community call
Galaxy for linking Bisulfite sequencing with RNA sequencing
RNA-seq workshop for beginners: from sequences to visualization using Galaxy and R
The Gallantries team is offering its second RNA-seq workshop for beginners on October 7-9th. This workshop will be delivered simultaneously at 3 locations across Europe (Rotterdam, NL; Thessaloniki, GR; Tartu, EE).
Bioconda Collaboration Fest
Join us in Freiburg, join other events or organise your own local Bioconda Collaboration Fest
Galaxy HTS data analysis workshop in Freiburg
We are offering a Galaxy beginner workshop on high-throughput data analysis.
Microscopy Image Analysis Course
Microscopy Image Analysis Course
microscopy image analysis for cell biology
Galaxy @ GCB 2019
Galaxy Training Network day - (online) CoFest and community call
RNA-Seq data analysis with Galaxy for clinical applications
NGS data analysis with Galaxy for clinical applications
A joint GMDS and de.NBI tutorial
2nd de.NBI Cloud User Meeting
RNA-seq workshop for beginners: from sequences to visualization using Galaxy
The Gallantries team is offering its first RNA-seq workshop for beginners on June, 11-12th. It will be delivered simultaneously at two locations across Europe (Rotterdam, NL and Freiburg, DE).
GTN CoFest and community call
ELIXIR Bioinformatics Suppliers Forum 2019
Galaxy training and hackathon at Roscoff/France
Miracum whole-exome sequencing pipeline workshop in Freiburg
Galaxy for linking Bisulfite sequencing with RNA sequencing 06.-08.03.2019 in Rostock
Galaxy HTS data analysis workshop in Freiburg
Galaxy beginner workshop on High-Throughput data analysis
Galaxy HTS data analysis workshop
Galaxy beginner workshop on High-Throughput data analysis
GTN CoFest and call on Galaxy Training Material
2019 Galaxy Admin Training
2019 Galaxy Admin Training
The ins and outs of setting up your own production quality Galaxy server
Galaxy RNA-seq data analysis workshop in Belgrad
Galaxy RNA-seq data analysis workshop in Freiburg
European Galaxy Days
GTN CoFest on Training Material
Galaxy HTS data analysis workshop in Freiburg
RNA-Seq data analysis with Galaxy for clinical applications
GTN CoFest on Metagenomics Training Material
A Primer for RNA-Sequencing Processing, Interpreting and Visualization in Jena
Galaxy Community Conference and Bioinformatics Open Source Conference
ELIXIR 2019 All Hands
ELIXIR 2018 All Hands
CarpentryCon
4th de.NBI Genomics training course
Microbial genomics: quality control, assembly, annotation & comparative genomics
Galaxy User Conference
Galaxy HTS data analysis workshop in Freiburg
VRE deployment workshop
Practical computational reproducibility in the life sciences
de.NBI Symposium
Software Carpentry Workshop
A Primer for RNA-Seq Processing, Interpretation and Visualization
de.NBI Summer School 2017 - Computational genomics and RNA biology
Computational Genomics and RNA Biology
de.NBI Summer School, Appl deadline 1 July