July 2019 Galactic News

GCC2019 is here! (And other new stuff too)

June 28th 2019

Galaxy News

The July 2019 Galactic News is here!

If you have anything to include to next month's newsletter, then please send it to outreach@galaxyproject.org.


GCC2019 is here!

GCC2019

The 2019 Galaxy Community Conference starts on Monday, 1 July. And we are all very excited, dang it!

See you in Freiburg!

Upcoming events

Deadlines this month:

Upcoming events:

DateTopic/EventVenue/LocationContact
July 1st 2019 2019 Galaxy Community Conference (GCC2019) Freiburg, Germany Training offered by GTN MemberOrganizers
July 2nd 2019 Galaxy @ JOBIM 2019 Nantes, France Presenters
July 3rd 2019 An introduction to Galaxy with the NeCTAR Genomics Virtual Laboratory 2019 Winter School in Mathematical & Computational Biology, Brisbane, Queensland, Australia Training offered by GTN MemberIgor Makunin
July 10th 2019 Analyse fonctionnelle et interprétation de données de protéomique avec la plate-forme ProteoRE Campus de Beaulieu, Rennes, France proteome@univ-rennes1.fr
July 29th 2019 Getting started with Galaxy and NGS Platforms QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
July 30th 2019 Genome assembly using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
July 31st 2019 Variant detection using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
August 1st 2019 "Teaching undergraduate genomics with Galaxy” and “Resources and recommendations for teaching undergraduate genomics with Galaxy" ASMCUE 2019, Tyson, Virginia, United States Training offered by GTN MemberMohammad Heydarian, Anton Nekrutenko
August 1st 2019 RNA Seq analysis using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
August 2nd 2019 Metagenomics analysis using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
September 8th 2019 NGS data analysis with Galaxy for clinical applications GMDS-Jahrestagung, Dortmund, Germany Training offered by GTN MemberMarkus Wolfien
September 9th 2019 Gateways Focus Week Chicago, Illinois, United States help @ sciencegateways.org
September 23rd 2019 Getting started with Galaxy and NGS Platforms QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
September 23rd 2019 Gateways 2019 San Diego, California, United States James Taylor
September 24th 2019 Genome assembly using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
September 25th 2019 Variant detection using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
September 26th 2019 RNA Seq analysis using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org
September 27th 2019 Metagenomics analysis using Galaxy QFAB, St Lucia, Queensland, Australia Training offered by GTN Membertraining@qfab.org

Publications

153 new publications referencing, using, extending, and implementing Galaxy were added to the Galaxy Publication Library in the last month.

Highlighted Publications

There were 7 Galactic and Stellar publications added, and all of them are open access:

Publication Topics

# Tag # Tag # Tag # Tag
102 +Methods 45 +UsePublic 21 +UseMain 20 +Workbench
13 +RefPublic 9 +UseLocal 6 +Reproducibility 5 +IsGalaxy
5 +Tools 3 +Cloud 3 +Other 2 +Project
1 +Education 1 +Shared 1 +Unknown 1 +UseCloud

Galaxy Platforms News

The Galaxy Platform Directory lists resources for easily running your analysis on Galaxy, including publicly available servers, cloud services, and containers and VMs that run Galaxy.

UseGalaxy.eu News

GalaxyAustralia News

OpenMinTeD: Open Mining Infrastructure for Text & Data

GCC2019

OpenMinTeD is dedicated to offering advanced high-quality TDM-related services to researchers, TDM experts, SMEs and industry – anyone interested in making sense and extracting hidden knowledge from the huge bulks of scientific and scholarly content. Galaxy is used to build and execute workflows on the platform. Sign in to the platform, choose Add in the menu and then Applications. Then choose Build an application with existing components to access the Galaxy-based workflow editor. To run a workflow use the Process menu item.

Guidelines and other support material are available. Anyone can create a login. Galaxy can be used to build workflows, but interactive use of Galaxy is restricted - i.e. you cannot interact with the history. The execution of workflows happens via the the platform.

OpenMinTeD will be presented at GCC2019.

Galaxy Platforms in Publications

Platforms that were referenced at least twice in the past month's publications:

# Tag # Tag # Tag # Tag
19 >Huttenhower 5 >RepeatExplorer 3 >CPT 3 >Galaxy-P
3 >GVL-Unspecified 3 >Workflow4Metabolomics 2 >ARGs-OAP 2 >Genomic Hyperbrowser

Who's Hiring

Please Help! Yes you!

The dark energy of irreproducible research is threatening the science universe! Please help the Galaxy push it back!

Have a Galaxy-related opening? Send it to outreach@galaxyproject.org and we'll put it in the Galaxy News feed and include it in next month's update.


Doc, Hub, and Training Updates

Galaxy Training Materials

Updates from the Galaxy Training Materials:


ToolShed Contributions

Galaxy ToolShed

Tool Shed contributions in June 2019.

Releases

New additions (and editions) in the Galaxy Ecosystem.

Galaxy v 19.05

The May 2019 Galaxy release comes with additional user-facing release notes, and the full release notes as well. Big improvements in this release include a rewrite of the login and registration system, and improvements in workflow expressivity.

Pulsar 0.13.0

Pulsar

Pulsar is a Python server application that allows a Galaxy server to run jobs on remote systems (including Windows) without requiring a shared mounted file systems. Unlike traditional Galaxy job runners - input files, scripts, and config files may be transferred to the remote system, the job is executed, and the results are transferred back to the Galaxy server - eliminating the need for a shared file system.


Other News