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<<div(left)>><<BR>>[[Events/GCC2014|{{attachment:Images/Logos/GCC2014LogoTall200.png|GCC2014: June 30 - July 2|width="120"}}]]<<div>>
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<<div(right)>>[[Events/GCC2014|{{attachment:Images/Logos/GCC2014LogoTall200.png|GCC2014: June 30 - July 2|width="120"}}]]<<div>>
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This is the Galaxy Community's largest annual gathering and we are looking forward to learning what everyone has been up to.

=== Galaxy Hackathon at GCC2014 ===

<<div(right)>>[[Events/GCC2014/Hackathon|{{attachment:Images/Logos/GCC2014HackLogoSquare.png|GCC2014 Hackathon|width="80"}}]]<<div>>

The very first [[Events/GCC2014/Hackathon|Galaxy Project Hackathon]] starts Saturday, June 28th at Johns Hopkins and immediately preceding [[Events/GCC2014|GCC2014]].
Fifteen [[Events/GCC2014/TrainingDay|Training sessions on 12 topics]], several [[Events/GCC2014/BoFs|Birds of a Feather]], two lightning talk sessions, and the very first [[Events/GCC2014/Hackathon|Galaxy Project Hackathon]] are also happening.
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=== Galaxy @ ISBMB and BOSC 2014 ===

<<div(right)>>
[[Events/ISMB2014|{{attachment:Images/Logos/BOSC_logo.png|BOSC 2013|height="75"}}]]&nbsp;&nbsp;&nbsp;
[[Events/ISMB2014|{{attachment:Images/Logos/ISMB2014LogoRound.png|ISMB 2014|height="85"}}]]
<<div>>

There will be at least six talks and five posters related to Galaxy at [[Events/ISMB2014|ISMB and BOSC 2014]] this year. Talks include

 * ''Galaxy as an Extensible Job Execution Platform'', [[JohnChilton|John Chilton]]
 * ''Enhancing the Galaxy Experience through Community Involvement'', [[Dan|Daniel Blankenberg]]
 * ''[[http://www.iscb.org/uploaded/css/166/29988.pdf|TT03: Interactive Visual Analysis with Galaxy Charts]]'', [[SamGuerler|Sam Guerler]]
 * ''[[http://www.iscb.org/uploaded/css/166/30137.pdf|TT24: From the Ground to the Cloud in 25 minutes: Building a Customized Galaxy Analysis Server Using Only a Web Browser]]'', [[Dan|Daniel Blankenberg]]
 * ''[[http://www.iscb.org/uploaded/css/166/30125.pdf|TT27: Bioinformatics and Computer Biology Systems design applied to Medical Molecular Nanobiotechnology]]'', Allan Orozco
 * ''[[http://www.iscb.org/uploaded/css/166/30134.pdf|TT29: Scaling Galaxy: Preparing for Those Next Few Orders of Magnitude]]'', [[JohnChilton|John Chilton]]
  
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There are [[Events|at least 13 other Galaxy related events]] in the next two months in Thailand, Canada, France, the United States, Italy, the Netherlands, Australia, and Brazil. Also see the [[http://bit.ly/gxycal|Galaxy Events Google Calendar]] for details on other events of interest to the community. Over the rest of the summer there are other [[Events|Galaxy related events]] in Leiden, Sydney, Brisbane, São Paulo, and Rio de Janeiro. Also see the [[http://bit.ly/gxycal|Galaxy Events Google Calendar]] for details on other events of interest to the community.
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||<class="th">June 28-30 || [[Events/GCC2014/Hackathon|Galaxy Hackathon]] ||<|2> [[http://webapps.jhu.edu/jhuniverse/information_about_hopkins/campuses/homewood_campus/|Homewood Campus]] of [[http://jhu.edu|Johns Hopkins University]], [[http://visitors.baltimorecity.gov/|Baltimore, Maryland]], United States || [[Events/GCC2014/Organizers|Organizers]] ||
||<class="th"> June 30 -<<BR>>July 2 || '''[[Events/GCC2014|2014 Galaxy Community Conference (GCC2014)]]''' || [[Events/GCC2014/Organizers|Organizers]] ||
||<class="th"> July 7-9 || ''[[http://biosb.nl/education/course-portfolio/rna-seq/|NBIC/BioSB RNA- seq data analysis course]]'' || Leiden, the Netherlands || <<MailTo(education AT biosb DOT nl, NBIC/BioSB)>> ||
||<class="th"> July 10 || ''[[http://www.genetics.org.au/annual-meeting-2014/workshops/|An Introduction to Galaxy with the Genomics Virtual Lab]]'' || [[http://www.genetics.org.au/annual-meeting-2014/|Post-GSA 2014 Workshop]], Sydney, Australia || [[http://www.qfab.org/mark-crowe/|Mark Crowe]] ||
||<class="th"> July 11-15 || '''[[Events/ISMB2014|ISMB and BOSC 2014]]'''<<div(indent)>>At least six talks and five posters<<div>> || Boston, Massachussetts, United States || See [[Events/ISMB2013|presenter list]] ||
||<class="th"> July 18 || ''[[http://www.qfab.org/event/workshop-rna-seq-analysis-using-galaxy-brisbane/|Workshop: RNA-Seq analysis using Galaxy]]'' || Brisbane, Australia || [[http://www.qfab.org/mark-crowe/|Mark Crowe]] ||
||<class="th"> July 28 - August 1 || ''[[Events/SaoPaulo2014|Workshop: DNA Sequence Bioinformatics Analysis with the Galaxy Platform]]'' || [[http://usp.br/|University of São Paulo (USP)]], São Paulo, Brazil || [[DaveClements|Dave Clements]] ||
||<class="th"> August 25-27 || ''Análise e anotação funcional de seqüências NGS usando Stingray@Galaxy'' || [[https://portal.fiocruz.br/|Fiocruz]], Rio de Janeiro, Brasil || <<MailTo(bioinformatica@ioc.fiocruz.br, Plataforma de Bioinformática do IOC)>> ||
||<class="th"> September 6-10 || ''[[http://www.eccb14.org/program/tutorials/workflows|T07 - Scientific Workflows for Analysing, Integrating and Scaling Bioinformatics Data: a Practical Introduction to Galaxy, Taverna and WS-PGRADE]]'' || [[http://www.eccb14.org/|European Conference on Computational Biology (ECCB'14)]], Strasbourg, France || [[http://wiki.data.dtls.nl/index.php/User:Leon_Mei|Hailiang (Leon) Mei]] ||
||<class="th"> September&nbsp;30 - October 2 || ''[[http://www.fc3bio.fr/Analyse-des-donnees-RNA-seq-et-ChIP-seq-sequencage-haut-debit--a-l-aide-d-outils-orientes-vers-un-public-de-biologistes_a39.html|RNA-Seq & ChIP-Seq analysis course using Galaxy]]'' || [[http://www.prabi.fr|PRABI]], Lyon, France || <<MailTo(navratil AT prabi DOT fr, Navratil V)>>., <<MailTo(oger AT prabi DOT fr, Oger C.)>>, <<MailTo(veber AT prabi DOT fr, Veber P.)>>, <<MailTo(deschamps AT prabi DOT fr, Deschamps C.)>>, <<MailTo(perriere AT prabi DOT fr, Perriere G.)>> ||
||<|3 class="th"> September 30 - October 2 || [[Events/Switzerland2014/trainingday|Galaxy Training and Demo Day]] || Bern (Switzerland) ||<|3> [[HansrudolfHotz|Hans-Rudolf Hotz]] and [[BjoernGruening|Bjoern Gruening]] ||
||''[[Events/Switzerland2014|(second Swiss) Galaxy Workshop]]'' || SyBIT Tech Day, Bern (Switzerland) ||
|| ''[[Events/Germany2014|German Galaxy Developers Day]]'' || Freiburg (Germany) ||

Hey! This is under construction!

July 2014 Galaxy Update

Galaxy Updates

Welcome to the July 2014 Galaxy Update, a monthly summary of what is going on in the Galaxy community. Galaxy Updates complement the Galaxy Development News Briefs which accompany new Galaxy releases and focus on Galaxy code updates.  

The Galaxy Update is going out a few days early this month because the usual release date is during GCC2014.

Events


GCC2014: June 30 - July 2

GCC2014: June 30 - July 2, Baltimore

The 2014 Galaxy Community Conference (GCC2014) starts on Monday, June 30, and runs through July 2, at the Homewood Campus of Johns Hopkins University, in Baltimore, Maryland, United States. The program is online and all titles and abstracts for accepted talks and posters are now online.

Fifteen Training sessions on 12 topics, several Birds of a Feather, two lightning talk sessions, and the very first Galaxy Project Hackathon are also happening.


Galaxy @ ISBMB and BOSC 2014

BOSC 2013    ISMB 2014

There will be at least six talks and five posters related to Galaxy at ISMB and BOSC 2014 this year. Talks include

Other Events

http://bit.ly/gxycal

Over the rest of the summer there are other Galaxy related events in Leiden, Sydney, Brisbane, São Paulo, and Rio de Janeiro. Also see the Galaxy Events Google Calendar for details on other events of interest to the community.


Date

Topic/Event

Venue/Location

Contact

June 28-30

Galaxy Hackathon

Homewood Campus of Johns Hopkins University, Baltimore, Maryland, United States

Organizers

June 30 -
July 2

2014 Galaxy Community Conference (GCC2014)

Organizers

July 7-9

NBIC/BioSB RNA- seq data analysis course

Leiden, the Netherlands

NBIC/BioSB <education AT biosb DOT nl>

July 10

An Introduction to Galaxy with the Genomics Virtual Lab

Post-GSA 2014 Workshop, Sydney, Australia

Mark Crowe

July 11-15

ISMB and BOSC 2014

At least six talks and five posters

Boston, Massachussetts, United States

See presenter list

July 18

Workshop: RNA-Seq analysis using Galaxy

Brisbane, Australia

Mark Crowe

July 28 - August 1

Workshop: DNA Sequence Bioinformatics Analysis with the Galaxy Platform

University of São Paulo (USP), São Paulo, Brazil

Dave Clements

August 25-27

Análise e anotação funcional de seqüências NGS usando Stingray@Galaxy

Fiocruz, Rio de Janeiro, Brasil

Plataforma de Bioinformática do IOC <bioinformatica@ioc.fiocruz.br>

September 6-10

T07 - Scientific Workflows for Analysing, Integrating and Scaling Bioinformatics Data: a Practical Introduction to Galaxy, Taverna and WS-PGRADE

European Conference on Computational Biology (ECCB'14), Strasbourg, France

Hailiang (Leon) Mei

September 30 - October 2

RNA-Seq & ChIP-Seq analysis course using Galaxy

PRABI, Lyon, France

Navratil V <navratil AT prabi DOT fr>., Oger C. <oger AT prabi DOT fr>, Veber P. <veber AT prabi DOT fr>, Deschamps C. <deschamps AT prabi DOT fr>, Perriere G. <perriere AT prabi DOT fr>

September 30 - October 2

Galaxy Training and Demo Day

Bern (Switzerland)

Hans-Rudolf Hotz and Bjoern Gruening

(second Swiss) Galaxy Workshop

SyBIT Tech Day, Bern (Switzerland)

German Galaxy Developers Day

Freiburg (Germany)

New Papers

xx papers were added to the Galaxy CiteULike Group in June. Some papers that may be particularly interesting to the Galaxy community:

The new papers were tagged in many different areas:

#

Tag

  

#

Tag

  

#

Tag

  

#

Tag

-

Cloud 

-

Project 

-

Tools 

-

UsePublic

-

HowTo 

-

RefPublic 

-

UseCloud 

-

Visualization

-

IsGalaxy 

-

Reproducibility 

-

UseLocal 

-

Workbench

-

Methods 

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Shared 

-

UseMain

Who's Hiring

Please Help! Yes you!

The Galaxy is expanding! Please help it grow.

Got 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.


New Public Servers

One new public Galaxy server was added to the published list in June:

GVL-QLD

[ATTACH]


Galaxy Distributions

BioBlend 0.4.3 was released on April 11, 2014.

The most recent version of CloudMan was released in January 2014.

Galaxy Community Hubs

   Galaxy Community Log Board
Galaxy Deployment Catalog   

   Share your experience now   
Describe your instance now



One new Log Board entry was added in June:

The Community Log Board and Deployment Catalog Galaxy community hubs were launched last your. If you have a Galaxy deployment, or experience you want to share then please publish them.


Galaxy ToolShed

ToolShed Contributions

Galaxy Project ToolShed Repos

In no particular order:

Tools

  • From [[]]

    • [[]]:

Datatypes

  • From [[]]

    • [[]]:

Workflows

  • From [[]]

    • [[]]:

Packages

  • From [[]]

    • [[]]:

Tool Updates:

  • From [[]]

    • [[]]: updated to ...

Other News