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Galaxy News

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

The Galaxy News is also available as an RSS feed http://feed43.com/galaxynews.xml.

See Add a News Item below for how to get an item on this page and the RSS feed. Older news items are available in the Galaxy News Archive.

See also


News Items

The wiki migration is part of a general overhaul of Galaxy documentation that started with the creation of docs.galaxyproject.org. We also plan to move most admin documentation inside of Galaxy releases, and to support community maintainable training materials.

We are migrating the Galaxy wiki from MoinMoin to a GitHub based solution using GitHub Flavored Markdown for content, and the Metalsmith static site generator to render the actual site. The move to GitHub will allow us to take full advantage of GitHub's collaboration features and will move the documentation to a source format (Markdown) that more people are familiar with. Using Metalsmith to generate the site will give us much more flexibility in how we present semi-structured content such as the events calendar, the public Galaxy servers list, and the GTN trainer and training resources directories.

You'll be able to update the documentation entirely on GitHub. If you are inclined to go deeper you can clone the repository, make changes, and build and serve the entire site locally.

The migration has started. This wiki has been frozen. We will bring up a beta version of the new site at a different URL within a few days. We then expect a flurry of activity while the team and the community make improvements to the new site before it goes official on November 21.

We'll include guides on how to use the new setup, and what you'll need to know if you decide to dive into Metalsmith.

Posted to the Galaxy News on 2016-11-10

Galaxy News

Galaxy Australasia Meeting 2017 Galaxy Project Admin Training
European Galaxy Developer Workshop BioConda and Galaxy

Galaxy Arabic Speaking Community

The November Galactic News is out and upcoming events are again prominent:

There is also the new Arabic speaking Galaxy Community, 87 new publications (including six featured pubs), seven open positions, four new public Galaxy servers and a Jetstream update, one new GTN member and four new training resources, new releases of galaxy-lib & Planemo, and new TooShed contributions.

We hope to see you in Melbourne, Strasbourg, Salt Lake, online, and around the world,

Dave Clements and the Galaxy Team

Posted to the Galaxy News on 2016-10-31

Galaxy Arabic Speaking Community

أرشيف للقائمة البريدية جالاكسي بالعربية يحتوي على الاخبار والمناقشات والاعلانات الخاصة بمستخدمي جالاكسي من البلاد الناطقة بالعربية نرحب بانضمام أي شخص مهتم بالجلاكسي بلاتفورم
جالاكسي هي بلاتفورم لتحليل المعلومات الحيوية باستخدام أدوات برمجة أونلاين مجانا تتميز بأنها متاحة للجميع ونتائجها تتميز بالشفافية وبالقدرة على الحصول على نفس النتائج عند إجراء التحليل مرات عديدة.
السهولة : يمكن لأي شخص استخدام جالاكسي حتى لو لم تكن لديه خبرة كافية بتحليل المعلومات الحيوية
النتائج : تحصل على نفس النتائج مهما أجريت التجربة مرات عديدة وهذا يميز جالاكسي عن العديد من الأدوات الاخرى
الشفافية : يمكنك أن تشارك ما توصلت إليه مع زملائك والعالم كله ويمكنك النشر أيضا .
جالاكسي مفتوحة لكل المنظمات والسرفر الرئيسي يمكنك من إجراء تحليل على المعلومات الجينية وإيضا توجد مواد تعليمية للتدريب وأماكن العمل وخدمات النشر يمكنك استخدام جالاكسي أونلاين ويمكنك أيضا تنزيلها على الكمبيوتر الخاص بك واستخدامها


We are pleased to announce the launch of the Galaxy Arabic community. Galaxy Arabic supports and promotes Galaxy activity for the Arabic speaking community and in Arabic speaking regions of the world.

If you are interested in joining the community, please

We look forward to connecting and growing the Arabic speaking Galaxy community.

Thanks,

Abdelazeem Abdelhameed <abdelazeem_abdelhameed2015505@yahoo.com> and Dave Clements

Posted to the Galaxy News on 2016-10-27

https://www.nsf.gov/news/mmg/media/images/jetstream_logo_f_fe60185c-962f-4c1f-99bf-e6ec82d54c21.jpg

Galaxy release 16.07 is now available for free on the Jetstream cloud. This image contains the updated Galaxy application with a toolset that closely matches that of the public Galaxy server available at usegalaxy.org as well as a complete set of reference genomes available on that same server. Availability of the reference data was realized by enabling a connection to a (CVMFS-based) replica server that offers access to approximately 3TB of reference data (vs. ~50GB in the previous version of the image). An additional benefit of such integration is that the reference data is no longer stored on the machine image, reducing the size of that image to about 10GB, leaving more space for the analysis data. The base operating system is Ubuntu 14.04. The image was built using the cloud_setup flavor of the GalaxyKickStart Ansible playbook.

Posted to the Galaxy News on 2016-10-17

Galaxy News

Galaxy Project Admin Training Galaxy Australasia Meeting 2017
2016 Swiss German Galaxy Tour

The October Galaxy News is hot off the presses and upcoming events are prominent:

There are also 117 new publications (including six featured pubs), four open positions, two new public Galaxy servers and one new semi-public Galaxy service, new releases of galaxy-lib & Planemo, new TooShed contributions, and other news too.

We hope to see you in Freiburg, Salt Lake, Melbourne, online, and around the world,

Dave Clements and the Galaxy Team

Posted to the Galaxy News on 2016-10-03

Galaxy Australia Community

Today we officially launch the Galaxy Australia community with the opening of registrations for the Galaxy Australasia Meeting 2017 (GAMe 2017) being held in Melbourne over 3-9 February. Australian Galaxy users and administrators will now have more opportunities to interact and collaborate to identify and address the needs of the local community. The community will also be a hub for Australian Galaxy training courses and offer a catalog of Australian Galaxy servers.

The establishment of Galaxy Australia is supported by the EMBL Australia Bioinformatics Resource (EMBL-ABR) in its appointed role of supporting the development of skills and training in the Australian life science research community. At the EMBL-ABR Hub, hosted at the Victorian Life Sciences Computation Initiative (VLSCI), Galaxy is used extensively for teaching and data analysis directly as well as through the Australian-made Genomics Virtual Laboratory. VLSCI’s expert bioinformaticians and professional staff will help promote community activities and training.

@GalaxyAustralia

Galaxy Australia has a has a Twitter feed (@GalaxyAustralia) for announcements and discussion relevant to the community.


Galaxy Australasia Meeting 2017 (GAMe 2017)

Galaxy Australasia Meeting (GAMe 2017)

The Community’s first major activity is to organise the Galaxy Australasia Meeting 2017 (GAMe 2017), 3-9 February in Melbourne.

We are pleased to announce that early registration and talk and poster abstract submission are now open for GAMe 2017. This meeting will bring together biomedical researchers, bioinformaticians, infrastructure providers, and data producers from across Australia and Asia to share expertise across many levels.

The conference starts 4 February and features two full days of keynotes, accepted and sponsor talks, poster and sponsor sessions, birds­-of-­a­-feather gatherings, a conference dinner and lots of opportunities for networking.

Prior to the conference we are offering a Researcher Training Day on 3 February, aimed at biomedical researchers who need to analyse their biological data. The conference is followed by a four day workshop on Galaxy server administration for those working at that level.

Talk abstracts are due 30 November and early registration ends 31 December. Register now and save up to 43% off regular registration rates. There are also scholarships available for eligible students and postdocs. The scholarship application deadline is 18 November.

We look forward to welcoming you to Melbourne. Remember to pack for our fabulous February weather!

GAMe 2017 Organising Committee (#game_2017)

Posted to the Galaxy News on 2016-10-03

2016 Galaxy Community Conference (GCC2016)  

2012 Galaxy Community Conference   

2017 Galaxy Community Conference (GCC2017)  

GCC2014, June 30-July2   

2013 Galaxy Community Conference (GCC2013)   

2015 Galaxy Community Conference (GCC2015)

GCC2011

GCC2018 needs a host!
(and a logo)


Hello all,

The Galaxy Community Conference has been held annually since 2010. GCC2017 will be held 26-30 June in Montpellier, France.

We are now seeking proposals from organizations interested in hosting GCC2018.

GCC alternates every year between meeting in North America, and meeting outside North America. Hosts for GCC2018 need to be located in North America.

GCC draws 200+ participants from data-intensive life science research. Participants come from around the world, from all career stages, and do research spanning the tree of life. Universities, hospitals and medical schools, research organizations, and industry are all represented, including some of the largest and most influential research organizations in the world.

What do you need to host GCC2018, you ask? In approximately decreasing order of importance:

  • Enthusiasm to plan and organize several events over several days for more than 200 people.

  • Space for 4-6 parallel training sessions, with each space able to accommodate 25 to 75 participants.
  • Central meeting space with capacity for 250-300 people.
  • Affordability (or access to sponsorship funds)
  • Nearby space for breakouts, poster sessions and sponsors.
  • Nearby space for lunch, coffee breaks.
  • Good wifi for all events (that's 200+ people and their devices).
  • Space for hackathons for 2 days
  • Easy to get to by air.
  • Nearby, affordable housing, or easy walking distance or easy public transport from lodging options to conference facilities
  • Close proximity to a pub and other social hubs.

Hosts get copious (and enthusiastic) organizational support from Galaxy's Outreach Team (who have been helping to organize GCC since 2011), and even more copious gratitude from the Galaxy Community.

See the full call for host proposals for more details on what should be covered in proposals. Proposals are due on November 30, 2016. If you are interested in possibly hosting GCC2018 then please contact Galaxy Outreach <outreach@galaxyproject.org> with any questions. Our goal is to announce GCC2018 at GCC2017 this coming June.

Hoping to work with you in 2018!

Dave Clements and the Galaxy Team

Posted to the Galaxy News on 2016-09-27

GalaxyProject


The Galaxy Committers team is pleased to announce the July 2016 (v16.07) release of Galaxy.


Reminders


Highlights

v16.07 Galaxy Release Highlights


Get Galaxy

v16.07 Galaxy Release Github


On behalf of the Galaxy Core and Contributor team (and community), Thanks for using Galaxy!

Posted to the Galaxy News on 2016-08-25

Galaxy Project Admin Training
November 7-11, 2016
University of Utah
Salt Lake City, Utah
United States

Registration is open

We are pleased to announce that registration for Galaxy Admin Training 2016 is now open.

Galaxy Admin Training 2016 is a weeklong event offering basic and advanced sessions. It is being held in Salt Lake City, Utah, November 7-11, 2016, the week before Supercomputing 16 (SC16) meets in Salt Lake.

Basics Session: November 7-8

This two day basics session will introduce participants to what you need to know to get a Galaxy server up and running on a standalone server. You'll also learn how to extend your Galaxy with your own tools and tools from the community, and how to define reference data in your server as well.

Advanced Session: November 9-11

The three day advanced session will build on topics covered in the basics section. This session both extends those topics, such as tool definition, and adds new ones, such as working with compute clusters and heterogeneous resources. The goal of the advanced workshop is to enable Galaxy administrators to create robust, high-performance Galaxy instances that take full advantage of available tools and compute and storage resources.

Register by September 19 and save up to $130 off standard registration rates (and up to $250 if you work in industry).


University of Utah Center for High Performance Computing (CHPC)   University of Utah University of Utah Department of Biomedical Informatics University of Utah Clinical & Translational Science Biomedical Informatics Core (CCTS BMIC)

Galaxy Admin Training 2016 is hosted by the University of Utah Center for High Performance Computing (CHPC), the Department of Biomedical Informatics and the Clinical & Translational Science Biomedical Informatics Core (CCTS BMIC) at the University of Utah.

We hope to see you in Salt Lake!

The Galaxy Team

Posted to the Galaxy News on 2016-08-23

Galaxy-P

University of Minnesota

A post-doctoral position is available at the University of Minnesota for development of bioinformatics tools, with a focus on applications that integrate data across ‘omics’ domains (genomics, transcriptomics, proteomics and metabolomics). A particular emphasis is in the integration of mass spectrometry (MS)-based proteomics data with other types of ‘omics’ data for applications in proteogenomics and metaproteomics. The researcher will join a successful team of developers, collaborators and users who have developed the Galaxy for proteomics (Galaxy-P) platform (see usegalaxyp.org and references).

A Ph.D. in bioinformatics, computer science, analytical chemistry or closely related field is required. Experience with MS-based proteomics data analysis is highly preferred, and familiarity with the Galaxy framework is a plus.

Interested applicants can apply directly to Dr. Tim Griffin <tgriffin@umn.edu>.

Posted to the Galaxy News on 2016-07-22

Want More?

See the News Archive for older postings.


Add a News Item

News items on this page have a very specific format that allows an RSS feed generator to parse the page and create an RSS feed. Each item is created using the News Template, which provides you with a page skeleton that has the needed format.

  1. Pick a good descriptive, CamelCase page name.

  2. Type it in a box below and hit the "Create" button.
  3. Follow the instructions on that page: set the page title (35 chars or less, including spaces) and populate the new page with your news item text. Try to keep it short.
  4. Save, review, and edit the page until you are happy with it.
  5. Return to this page, and add a link at the top of the News Items section using the include macro. This final step will publish your item to this page and to the RSS feed. For example, if your news item page is "My News Item", add this:
    • <<Include(New/MyNewsItemPageName, , to="^CategoryNews")>>

If this seems a little daunting, or you just don't want to mess with the wiki, send your news item to Galaxy Outreach and we'll post it for you.