ELIXIR-IT/Laniakea Galaxy News

news

This page contains announcements of interest to the Galaxy Community. These include items from the Galaxy Team or the Galaxy community and address anything that is of wide interest to the community.

Also see the Galactic Blog for more.

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To add a news item, create a new folder within the news folder with an index.md file. It's probably easiest to copy the format from one of the other existing news items as a template.

30 November 2022Slow Storage on EUStorage bottleneck on usegalaxy.eu results in slow queueing times
24 November 2022Work Package 5 of the EuroScienceGateway projectWP5 - use-cases from 3 early adopters to embrace Open Science best practices
24 November 2022Work Package 1 of the EuroScienceGateway projectWP1 is covering all aspects of project administration and project management
6 November 2022EuroScienceGateway - Kickoff meetingThe EuroScienceGateway project started officially with a 2 days kickoff meeting with all 17 partners
5 November 2022The start of the EuroScienceGateway - an EOSC projectEuroScienceGateway will deliver a robust, scalable, seamlessly integrated open infrastructure for data-driven research
4 November 2022Are you passionate about training in life sciences? The Freiburg Galaxy Team is looking for a team member who will develop, coordinate and implement training programs within international communities, especially via BioNT, a new multi-organization project funded by the European Commission, and via the Galaxy Training Network (GTN).
1 November 2022Impact on Galaxy of OpenSSL 3.0.x Vulnerabilities CVE-2022-3602 and CVE-2022-3786 ("Spooky SSL")Official severity downgraded to HIGH, exploitability and impact to Galaxy is very low
19 October 2022Research Data Management in GalaxyHow Galaxy manages your (meta)data
17 October 2022Galaxy as a cross-EOSC platformNew scientific collaboration agreement between EOSC-Life and EOSC-Pillar
14 October 2022Well-being and Mental Health GuidelinePublication of the Guideline
12 October 2022Outcomes of the European Galaxy DaysThe European Galaxy Community gathered in Freiburg to discuss recent and future Galaxy developments
28 September 2022Introducing the Galaxy Global HubFind all your Galaxy info in one website
10 August 2022The European Galaxy Team is hiring!The Freiburg Galaxy Team is looking for a Systems Engineer/DevOps Engineer!
6 July 2022New Paper "Creating a good learning and sharing environment for bioinformatics"Tomas Klingström and J.I. Ohlsson have published a paper about the use of BioContainers, Galaxy, and the GTN for bioinformatics researchers.
27 June 2022GCC2022: Registration open for Webinar modeFor those that won't attend in person, the GCC Organizing Committee is happy to announce a virtual webinar-like option
23 June 2022Usegalaxy.eu has reached 50,000 registered usersBig 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!
21 June 2022Galaxy taking part @ Elixir All Hands 2022During 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.
7 June 2022Training Infrastructure Feedback from Stefanie Dukowic-SchulzeDr.
27 May 2022New Paper "Transcriptome profiling of cisplatin resistance in triple-negative breast cancer: New insight into the role of PI3k/Akt pathway"Amir Sabbaghian and colleagues have published a paper related to the resistance to cisplatin in the treatment of triple negative breast cancer.
28 April 2022Training Infrastructure Feedback from Hans-Rudolf Hotz and Lucille DelisleAfter 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.
20 April 2022Towards a sustainable storage, enabling co-financing of public infrastructureResearch groups and networks can include their own storage into the European Galaxy server and decide about quota and data policies.
12 April 2022It 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?.
11 April 2022Complete human genome T2T-CHM13v2.0 available in GalaxySomething that the scientific community has been eagerly awaiting: the first complete, gap-free sequence for all 24 human chromosomes (including Y)
20 March 2022Genomic analysis on Galaxy using Azure CycleCloud
14 March 2022We 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
7 March 2022New Paper "Distal and proximal cis-regulatory elements sense X chromosome dosage and developmental state at the Xist locus"Congratulations Rutger Gjaltema and team for your latest findings about X chromosome regulations.
7 March 2022New Paper "Gut microbiota drives age-related oxidative stress and mitochondrial damage in microglia via the metabolite N6-carboxymethyllysine"Our work led by Omar Mossad and Thomas Blank (Institute of Neuropathology, University of Freiburg) has been published last week in Nature Neuroscience
5 March 2022New Paper "Impact of high platelet turnover on the platelet transcriptome: Results from platelet RNA-sequencing in patients with sepsis"Thomas Nührenberg and team published a new paper in PLOS ONE about the "Impact of high platelet turnover on the platelet transcriptome".
28 February 2022New Paper "Pluripotency factors determine gene expression repertoire at zygotic genome activation"
25 February 2022New Paper "Democratizing data-independent acquisition proteomics analysis on public cloud infrastructures via the Galaxy framework"Matthias Fahrner from the University of Freiburg is defending his PhD today.
25 February 2022Machine learning in GalaxyArtificial 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.
24 February 2022AlphaFold now available in GalaxyIt 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.
22 February 2022ELIXIR staff exchange between the German and Italian ELIXIR nodes
21 February 2022New Paper "The temperature-regulated DEAD-box RNA helicase CrhR interactome: autoregulation and photosynthesis-related transcripts"Thanks Anzhela Migur and team for sharing your recent work about the temperature-regulated DEAD-box RNA helicase CrhR interactome.
1 February 2022IT security management of the University of Freiburg certified by TÜV SÜD
1 February 2022IT security management of the University of Freiburg certified by TÜV SÜDTÜV SÜD has awarded the University's data centre the international certification for information security management systems ISO/IEC 27001.
28 January 2022Further 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!
20 January 2022Usegalaxy.eu surpassed 40.000 registered usersWe 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.
16 January 2022New 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.
14 December 2021The Galaxy Training Network will now support annotating Funding Agencies on training materials.
14 December 2021
14 December 2021A second Smörgåsbord with even more Galaxy Training
1 December 2021
1 December 2021We have just finished a new collection of training material for genome assembly and annotation!
1 December 2021Find out how contributing simple markdown tutorials can result in fantastically FAIR training.
25 November 2021
25 November 2021An overview and statistics on the Galaxy Help ForumFrom the GHelp supporting group, we thank you for the trust you place in us every day.
23 November 2021
23 November 2021Videos from online training events are now easier to find.
17 November 20214th de.NBI Cloud User meetingThe 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.
13 November 2021Training Infrastructure feedback: FORCeS eScience courseTools in Climate Science: Linking Observations with Modelling
10 November 2021Access data from the GTN in a more accessible, API based way.
2 November 2021Galaxy Release 21.09Tool Panel Views, Collections, Reports, Remote Data, FastAPI, SQLAlchemy & much more!
18 October 2021Training Infrastructure Feedback from Dr. Theodora TsirkaWe have received feedback about TIaaS from Dr. Theodora Tsirka, during the Training School on Microbiome Sequencing and Data Analysis
13 October 2021BY-COVID: A new EU project for pandemic preparednessA new €12 million Horizon Europe funded project which will tackle the data challenges that can hinder effective pandemic response.
12 October 2021As part of our work under the Gallantries Grant we are establishing a new topic within the GTN specifically focused on Data Science skills.
12 October 2021UseGalaxy.eu Use Case: cellular specification, differentiation and morphogenesis of the mucociliary epitheliumSarah Bowden from the Innere Medizin IV (Nephrologie und Allgemeinmedizin) and ZBSA - Center for Biological Systems Analysis in Freiburg (Germany) has shared with us the main area of research of her project.
11 October 2021UseGalaxy.eu Use Case: microRNAs in heart diseaseIleana Duran Fernandez from the School of Medicine of the Technical University of Munich works on heart disease.
1 October 2021Teaching bioinformatics through blood, mucus and tearsWatch out for that My Little Pony baby stroller.
29 September 2021
23 September 2021New Paper "Ready-to-use public infrastructure for global SARS-CoV-2 monitoring"
15 September 2021UseGalaxy.eu as a cross-disciplinary platform for European researchers
10 September 2021Annual reports 2020: ELIXIR and IFBThe ELIXIR and IFB annual reports for 2020 are out, and they highlight Galaxy work throughout.
3 September 2021UseGalaxy.eu Use Case: Marine turtle tumour disease
1 September 2021Win, Win, Win. When users support education programs to say thanks for free Galaxy resources
27 August 2021UseGalaxy.eu Use Case: Antibody responses following vaccination
24 August 2021Updates from the ELIXIR Galaxy CommunityAn updated ELIXIR Galaxy website includes our goals, with a special emphasis on interactions with the local, domain-specific and global communities; plus much more
24 August 2021Training Infrastructure as a Service (TIaaS) is sponsored by EOSC-LifeAnyone providing training is eligible to request the use of this service.
20 August 2021UseGalaxy.eu Use Case: Food safety research
13 August 2021UseGalaxy.eu Use Case: Sex determination of fish species
30 July 2021UseGalaxy.eu Use Case: Circadian research
28 July 2021
27 July 2021
23 July 2021UseGalaxy.eu Use Case: Heart research
16 July 2021UseGalaxy.eu Use Case: Epigenomics and transcriptomics in cancer
13 July 2021Highlights from the Galaxy Community Conference 2021399 participants from 55 countries
9 July 2021UseGalaxy.eu Use Case: Plant genomics
5 July 2021UseGalaxy.eu Use Case: colorectal cancer research
2 July 2021UseGalaxy.eu Use Case: Genomics, evolution, and ecology of organohalide-respiring bacteria
2 July 2021"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
1 July 2021Women in Data Science 2021 - Perspectives in Industry and Academia - Join Bayer AG and de.NBI / ELIXIR Germany event
30 June 2021
28 June 2021Open Life Science program & the Galaxy community: involvement in OLS-3 and invitation to apply to the next cohortOpen Life Science (OLS) is an online mentoring & training program
26 June 2021
25 June 2021UseGalaxy.eu Use Case: Genetics research on dairy cattle
25 June 2021
18 June 2021UseGalaxy.eu Use Case: Zika virus effects on brain and brain tumours
11 June 2021
10 June 2021Training Infrastructure Feedback from Abdus Salam
9 June 2021A Galaxy of tools at your fingertips inside of Broad Institutes Terra
4 June 2021
1 June 2021
28 May 2021Webinars: Galaxy Resources for ...Watch them now.
25 May 2021
25 May 2021
20 May 2021
20 May 2021The 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.
14 May 2021Two New Teaching Papers using GalaxyTwo hand-in-hand teaching papers have been published this week using Galaxy as a teaching platform.
4 May 2021May 2021 Galactic NewsGCC2021 and James Taylor Video Deadlines Extended, plus a whole lot more.
4 May 2021GCC2021 Abstract and Fellowship Submission, and Early Registration Deadlines ExtendedTalks & Fellowships due 17 May; Poster/Demos due 14 June
30 April 2021Outcomes 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
25 April 202130,000 users
19 April 2021The Galaxy community involved in several ELIXIR Implementation Studies
15 April 2021
14 April 2021GCC2021 Abstract Submission are OpenAbstracts are due May 17
14 April 2021GCC2021 Conference FellowshipsApply by May 17
14 April 2021GCC2021 Registration is OpenPlease join us at Galaxy's annual community gathering
12 April 2021April 2021 Galactic NewsGCC2021 Abstracts and Registration are open, plus lots more.
3 April 2021Training Infrastructure Feedback from Simon Gladman
28 March 2021Training Infrastructure Feedback from Dr. Fotis Psomopoulos
25 March 2021Galaxy-ELIXIR webinars series: Advanced Features
25 March 2021Training Infrastructure Feedback from Dr. Ricardo Gonzalo Sanz
25 March 2021How to import a workflow from the Workflow Hub and run it on remote COVID-19 data
22 March 2021Training Infrastructure Feedback from Martin Čech
19 March 2021
19 March 2021Training Infrastructure Feedback from Dr. Tuan Leng Tay
17 March 2021March 2021 Galactic NewsNew Featured and Community News sections; new events, releases, training, and lots of videos
16 March 2021
16 March 2021
16 March 20212021 Google Summer of CodeGalaxy is participating
10 March 2021Successful use cases from EOSC-Life using GalaxyThe first round of EOSC-Life demonstrators has driven eight successful use cases, three of them using Galaxy.
28 February 2021New introductory video to the Galaxy Training Network
25 February 2021Galaxy-ELIXIR webinar series: Open Data Infrastructures to tackle COVID-19 pandemic
22 February 2021Training Infrastructure Feedback from Mali Salmon-Divon
18 February 2021Meet & Join the Galaxy Community
18 February 2021New Paper "Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities"
14 February 2021Massive open online education party: GTN SmörgåsbordStarting Monday the 15th of February, the Galaxy Training Network (GTN) is running a global Galaxy online course
8 February 2021
8 February 2021February 2021 Galactic NewsEvents, platform news, blog posts, videos, pubs, jobs and releases
5 February 2021The European Galaxy server listed as an official resource on the COVID-19 Data Portal
4 February 2021
4 February 20212021 Galaxy Community Conference will be virtual, global, and affordableAnd globally accessible
30 January 2021New and updated CNV and Variant Calling toolson UseGalaxy.eu and in the Toolshed
28 January 2021Training Infrastructure Feedback from Lachlan Gray
22 January 2021Variant Analysis of SARS-CoV-2 Sequencing Data (Jan 2021 update)January 2021 update
15 January 2021New Galaxy Community Organization: Working Groups
12 January 2021Nominate a training for the 2021 Galaxy Community Conference (GCC2021)
7 January 2021January 2021 Galactic NewsEvents, platform news, blog posts, videos, pubs, jobs and releases
4 January 2021GTN Plant-related trainings
28 December 2020European Galaxy Flavours
22 December 2020Open 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
8 December 2020Training Infrastructure Feedback on the ELIXIR Belgium workshop “DDA and DIA proteomic analysis in Galaxy”
8 December 2020December 2020 Galactic NewsAnd what a month it is
3 December 2020UseGalaxy.eu update to 20.09
27 November 2020Training Infrastructure Feedback from Ambre Jousselin
19 November 2020Open Source Software Strategy approved by the European Commission
16 November 2020Biohackathon Europe 2020The Galaxy community has participated in several projects
3 November 2020November 2020 Galactic NewsJXTX Foundation, Events, Platforms, Jobs, Pubs, ...
29 October 2020The first Paper Cuts Community Fest was a success!So we will do this again in November!
22 October 2020More than 8000 packages/containers in Bioconda/BioContainers from more than 1000 contributorsfrom 1000+ contributors
22 October 2020The EOSC-Life newsletter is out!Galaxy training, CellProfiler, and more
21 October 202020,000 users
14 October 2020Training Infrastructure Feedback from Leighton PritchardAddressing challenges the global coronavirus pandemic
7 October 2020October 2020 Galactic NewsEvents & JTech, platforms, blog posts, tutorials, pubs, releases, ...
23 September 2020EOSC-Life Open CallsTwo funding opportunities are now open in EOSC-Life.
10 September 2020The ELIXIR tools platform for COVID-19 research at the ECCB2020
6 September 2020Galaxy Europe Branding Material
1 September 2020September 2020 Galactic NewsBCC2020 & GCC2021, events, platforms, blog posts, tutorials, pubs, releases, obs ...
31 August 2020New Paper "Sawfly Genomes Reveal Evolutionary Acquisitions That Fostered the Mega-Radiation of Parasitoid and Eusocial Hymenoptera"
30 August 2020New Paper "An epigenetic map of malaria parasite development from host to vector"
22 August 20203 steps to get your tool into Galaxy - A real-world exampleA real-world example
30 July 2020Galaxy Africa Community Update
29 July 2020UseGalaxy.eu update to 20.05
25 July 2020Training Infrastructure Feedback from Rodrigo Ortega Polo
1 July 2020CellProfiler now available in Galaxy
1 July 2020July 2020 Galactic NewsBCC2020, SRA, Events, Platforms, Training, Jobs, ...
11 June 2020June 2020 Galactic NewsJames Taylor Foundation, BCC2020, Galaxy+SRA, Events, Platforms, ...
8 June 2020Training Infrastructure Feedback from Marcel Schulz
4 May 2020May 2020 Galactic NewsJames Taylor, BCC2020, COVID-19 Response, and more
3 April 2020James Taylor1979 - 2020
2 April 2020Workshop on Workflow Management Systems
6 March 2020de.NBI Training Infrastructure Feedback from Helena Rascheand was wildly successful
1 March 2020ELIXIR-Italy launches Laniakea@ReCaS, a Galaxy “on-demand” platform
28 February 2020
27 February 2020TIaaS Calendar and Stats siteTraining Infrastructure as a Service
11 February 2020Towards a European network of Galaxy resources
10 February 2020Training Infrastructure Feedback from Beata Scholtz
30 January 2020ELIXIR tools platform meeting and Container SIS meeting in Paris
20 January 2020Training Infrastructure Feedback from Denny Popp
8 January 2020January 2020 Galactic NewsEvents, Pubs, Blogs, Platforms, Tutorials, Doc, and Happy New Year too
8 January 2020Galaxy Training SurveyWe need your input on preparing and giving Galaxy Trainings
9 December 2019December 2019 Galactic NewsEvents, Pubs, Blogs, Platforms, Tutorials, Doc, Jobs, Releases, and Platypi too.
3 December 2019Training Infrastructure Feedback from Ambre Jousselin
2 December 201910,000 users, 6,370,000 jobs and 11,900,000 datasetsA big thank you to all our users and people that have contributed to this project!
1 December 2019Training Infrastructure Feedback from Giovanni Widmer
26 November 2019PIPE-T paper published
12 November 2019November 2019 Galactic NewsEvents! Pubs! Platforms! Jobs! Releases!
8 November 2019UseGalaxy – a bioinformatic shopping mall from Sivakumar Prakash
7 November 2019RNA-Seq Training feedback from Simon Moxon
2 November 2019Training update from Tomas KlingströmAgricultural Sciences collaboration between Swedish University of Agricultural sciences researchers and the Agricultural Research Council in South Africa
15 October 2019Training Infrastructure Feedback from Charles Girardot
2 October 2019October 2019 Galactic NewsEvents! Pubs! Platforms! Jobs! Doc! Tutorials! And some other news too.
15 September 2019The European Galaxy server is part of the EOSC marketplace
6 September 2019First ATACseq training material!
30 August 2019September 2019 Galactic NewsEvents! Pubs! Platforms! Jobs! Doc! Tutorials! Releases! And some other news too.
28 August 2019TIaaS Queue Status Update
6 August 2019Galaxy Community Conference - a brief summary!A brief summary
1 August 2019August 2019 Galactic NewsGCC2019 is done; BCC2020 is coming
28 June 2019July 2019 Galactic NewsGCC2019 is here! (And other new stuff too)
17 June 2019TIaaS Queue Statususing UseGalaxy.eu’s Training infrastructure as a Service (TIaaS).
13 June 2019Native support for Elixir-AAI in Galaxy v.19.05the European Galaxy Server hosted by Elixir Germany is now ready to accept logins from users using their Elixir AAI identity for authentication..
10 June 2019Training Infrastructure Feedback from Nevena Veljkovic
6 June 2019UseGalaxy.eu update to 19.05
3 June 2019June 2019 Galactic NewsGCC2019 registration / Poster/Demo abstracts / sponsors, GTN CoFest, Platforms, Pubs, Jobs, Blog!, Training, Tools, Releases and more!
20 May 2019Another successful Galaxy workshop in Melbourne
6 May 2019May 2019 Galactic NewsGCC2019 registration / Poster/Demo abstracts / sponsors, GTN CoFest, Platforms, Pubs, Jobs, Blog!, Training, Tools, Releases and more!
24 April 2019GCC registration is open and abstracts can be submitted until Friday
3 April 2019April 2019 Galactic NewsGCC2019 registration and abstract submission, Platforms, Pubs, Jobs, Blog!, Training, Tools, Releases and more!
19 March 2019UseGalaxy.eu update to 19.01
4 March 2019March 2019 Galactic NewsGalaxyAdmins, GCC2019 Childcare sponsors, Platforms, Pubs, Jobs, Blog!, Training, Tools, Releases and more!
25 January 2019Galaxy enhances Introduction to Genomics as part of Master program in Belgrade, by Nevena Veljkovic
25 December 2018Gajan Kristnaskon kaj bonan novjaron!
11 December 2018UseGalaxy.eu update to 18.09
26 November 2018European Galaxy Days
31 October 2018Training Infrastructure Feedback from Maria Doyle
8 October 2018Initial release of 'gxadmin' tool
4 July 2018Bioconda: sustainable and comprehensive software distribution for the life sciences
5 June 2018Workshop for Galaxy training material and skills improvement
25 May 2018UseGalaxy.eu update to 18.05 and GDPR
15 March 2018Freiburg Galaxy becomes useGalaxy.eu