Difference between revisions of "Galaxy"

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{{ImageCenter|GalaxyLogoBigger.png|Galaxy||http://getgalaxy.org/}}
 
 
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[[File:GalaxyLogoBigger.png|center|400px|alt=Galaxy logo]]
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|{{ComponentBoxSectionHeader|Events}}
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<div class="componentBox">
|{{SchoolBoxItem|Galaxy}}<hr />
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<div class="compBoxHdr">Status</div>
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*Mature release
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*active development
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*active support
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<div class="compBoxHdr">Resources</div>
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*[http://usegalaxy.org Home page]
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*[http://getgalaxy.org Download]
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*[http://gmod.org/extras/2008GMODCommunitySurvey.html#{{{survey_link}}} 2008 Survey]
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{{ComponentBoxSectionHeader|Events}}
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{{SchoolBoxItem|Galaxy}}<hr />
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{{GalaxyEventsBoxItem}}
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</div>
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==About Galaxy==
  
 
[http://usegalaxy.org Galaxy] is an open, web-based platform for ''accessible, reproducible, and transparent'' computational biomedical research.
 
[http://usegalaxy.org Galaxy] is an open, web-based platform for ''accessible, reproducible, and transparent'' computational biomedical research.
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* ''Transparency:'' Galaxy enables users to share and publish analyses via the web and create Pages--interactive, web-based documents that describe a complete analysis.
 
* ''Transparency:'' Galaxy enables users to share and publish analyses via the web and create Pages--interactive, web-based documents that describe a complete analysis.
  
Galaxy is open source for all organizations. The [http://usegalaxy.org public Galaxy service] makes analysis tools, genomic data, tutorial demonstrations, persistent workspaces, and publication services available to any scientist that has access to the Internet. Local Galaxy servers can be set up by [http://getgalaxy.org downloading the Galaxy application] and customizing it to meet particular needs.
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Galaxy is open source for all organizations. The [http://usegalaxy.org public Galaxy server] makes analysis tools, genomic data, tutorial demonstrations, persistent workspaces, and publication services available to any scientist that has access to the Internet. Local Galaxy servers can be set up by [http://getgalaxy.org downloading the Galaxy application] and customizing it to meet particular needs.
  
  
__TOC__
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Visit the [http://getgalaxy.org Galaxy website].
  
  
== 2012 Galaxy Community Conference ==
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=== 2012 Galaxy Community Conference ===
  
{{ImageLeft|GCC2012Logo.png|2012 Galaxy Community Conference|200|http://galaxyproject.org/wiki/Events/GCC2012}}
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[[File:GCC2012Logo.png|left|200px|link=http://galaxyproject.org/wiki/Events/GCC2012|2012 Galaxy Community Conference]]
 
The [http://galaxyproject.org/wiki/Events/GCC2012 2012 Galaxy Community Conference (GCC2012)] was held July 25-27 at the [http://uic.edu University of Illinois at Chicago (UIC)].  The event was hosted by UIC, the [http://illinois.edu/ University of Illinois at Urbana-Champaign (UIUC)] and the [http://www.ci.anl.gov/ Computation Institute].
 
The [http://galaxyproject.org/wiki/Events/GCC2012 2012 Galaxy Community Conference (GCC2012)] was held July 25-27 at the [http://uic.edu University of Illinois at Chicago (UIC)].  The event was hosted by UIC, the [http://illinois.edu/ University of Illinois at Urbana-Champaign (UIUC)] and the [http://www.ci.anl.gov/ Computation Institute].
 +
  
 
[http://wiki.g2.bx.psu.edu/Events/GCC2012 GCC2012] had over 200 registrations and the conference featured [http://wiki.g2.bx.psu.edu/Events/GCC2012/Program two full days] of presentations and discussion on extending Galaxy to use new tools and data sources, deploying Galaxy at your organization, and best practices for using Galaxy to further your research.  It also featured a training day.
 
[http://wiki.g2.bx.psu.edu/Events/GCC2012 GCC2012] had over 200 registrations and the conference featured [http://wiki.g2.bx.psu.edu/Events/GCC2012/Program two full days] of presentations and discussion on extending Galaxy to use new tools and data sources, deploying Galaxy at your organization, and best practices for using Galaxy to further your research.  It also featured a training day.
  
==Demo & Screencasts ==
 
  
Try the [http://usegalaxy.org/ public Galaxy server].  You can create a login and save your work, or use it anonymously.  Short [http://main.g2.bx.psu.edu/screencast screencasts] on how to use Galaxy for several example tasks are also available.
 
  
==Documentation==
 
  
* Most Galaxy documentation is in the [http://wiki.g2.bx.psu.edu/ Galaxy Wiki].
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==Downloads==
* [http://www.genome.org/cgi/content/abstract/15/10/1451 Galaxy: A platform for interactive large-scale genome analysis], by Belinda Giardine, Cathy Riemer, Ross C. Hardison, Richard Burhans, Laura Elnitski, Prachi Shah, Yi Zhang, [[User:DanB|Daniel Blankenberg]], Istvan Albert, [[User:JamesTaylor|James Taylor]], Webb Miller, W. James Kent and Anton Nekrutenko, Genome Res. 15:1451-1455, 2005
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== Mailing Lists ==
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Galaxy download and installation information is at [http://getgalaxy.org/ GetGalaxy.org].
  
{{MailingListsFor|Galaxy}}
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Galaxy aims to be a zero configuration entirely self-contained system that provides a lightweight webserver, an embedded database and a multi-threaded job manager. All tools (and their parameters) can be specified via simple XML based configuration files. 
 +
 
 +
==Using Galaxy==
 +
 
 +
Please visit the [http://wiki.g2.bx.psu.edu/ Galaxy Wiki] for full documentation on all aspects of getting, installing, and using Galaxy.
 +
 
 +
 
 +
==Publications, Tutorials, and Presentations==
 +
 
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===Publications on or mentioning Galaxy===
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 +
* [[Galaxy]]: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. <span class="Z3988" title="ctx_ver=Z39.88-2004&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rfr_id=info%3Asid%2Focoins.info%3Agenerator&amp;rft.genre=article&amp;rft_id=info%3Apmid%2F20738864">PMID:20738864</span> <ref name=PMID:20738864/>
 +
* [[Galaxy]]: a web-based genome analysis tool for experimentalists". <span class="Z3988" title="ctx_ver=Z39.88-2004&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rfr_id=info%3Asid%2Focoins.info%3Agenerator&amp;rft.genre=article&amp;rft_id=info%3Apmid%2F20069535">PMID:20069535</span> <ref name=PMID:20069535/>
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===Tutorials===
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 +
The Galaxy wiki has a number of [http://main.g2.bx.psu.edu/screencast screencasts] on how to use Galaxy for several example tasks.
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==Contacts and Mailing Lists==
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{| class="wikitable"
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|
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! Mailing List Link
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! Description
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! Archive(s)
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{{Template:MailingListsGalaxy}}
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|}
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==More on Galaxy==
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See [[:Category:Galaxy]]
  
==Downloads==
 
  
Galaxy aims to be a zero configuration entirely self-contained system that provides a lightweight webserver, an embedded database and a multi-threaded job manager. All tools (and their parameters) can be specified via simple XML based configuration files.  Galaxy download and installation information is at [http://getgalaxy.org/ GetGalaxy.org].
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<references />
  
 
[[Category:Analysis]]
 
[[Category:Analysis]]

Revision as of 19:41, 24 August 2012

__NOTITLE__

Galaxy logo
Status
  • Mature release
  • active development
  • active support
Resources
Events

2012 GMOD Summer School


See the Galaxy
Events page
Galaxy Events Page

About Galaxy

Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research.

  • Accessibility: Galaxy enables users without programming experience to easily specify parameters and run tools and workflows.
  • Reproducibility: Galaxy captures all information necessary so that any user can repeat and understand a complete computational analysis.
  • Transparency: Galaxy enables users to share and publish analyses via the web and create Pages--interactive, web-based documents that describe a complete analysis.

Galaxy is open source for all organizations. The public Galaxy server makes analysis tools, genomic data, tutorial demonstrations, persistent workspaces, and publication services available to any scientist that has access to the Internet. Local Galaxy servers can be set up by downloading the Galaxy application and customizing it to meet particular needs.


Visit the Galaxy website.


2012 Galaxy Community Conference

2012 Galaxy Community Conference

The 2012 Galaxy Community Conference (GCC2012) was held July 25-27 at the University of Illinois at Chicago (UIC). The event was hosted by UIC, the University of Illinois at Urbana-Champaign (UIUC) and the Computation Institute.


GCC2012 had over 200 registrations and the conference featured two full days of presentations and discussion on extending Galaxy to use new tools and data sources, deploying Galaxy at your organization, and best practices for using Galaxy to further your research. It also featured a training day.



Downloads

Galaxy download and installation information is at GetGalaxy.org.

Galaxy aims to be a zero configuration entirely self-contained system that provides a lightweight webserver, an embedded database and a multi-threaded job manager. All tools (and their parameters) can be specified via simple XML based configuration files.

Using Galaxy

Please visit the Galaxy Wiki for full documentation on all aspects of getting, installing, and using Galaxy.


Publications, Tutorials, and Presentations

Publications on or mentioning Galaxy

  • Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. PMID:20738864 [1]
  • Galaxy: a web-based genome analysis tool for experimentalists". PMID:20069535 [2]

Tutorials

The Galaxy wiki has a number of screencasts on how to use Galaxy for several example tasks.


Contacts and Mailing Lists

Mailing List Link Description Archive(s)
Galaxy
(Search everything)
galaxy-announce Announcements of interest to the Galaxy community. Low volume and moderated. Nabble, Mailman
Galaxy Help General questions and discussion about using Galaxy. Also used for announcements relevant to the Galaxy user community. This is not a mailing list, but an online forum, based on the popular Discourse platform. High volume.
galaxy-dev Discussion and questions regarding local installations and development of Galaxy. High volume. Nabble, Mailman
galaxy-proteomics General questions and discussion regarding proteomics in Galaxy. Low volume. Nabble, Mailman
galaxy-france Cette liste est destinée à l'information (et aux discussions) de la Communauté francaise Galaxy. (This list is for announcements to (and discussion within) the French Galaxy Community. Most list content is in French.) Faible volume / Low volume. Nabble
galaxy-commits Galaxy source control commit messages. Mailman


More on Galaxy

See Category:Galaxy


  1. Cite error: Invalid <ref> tag; no text was provided for refs named PMID:20738864
  2. Cite error: Invalid <ref> tag; no text was provided for refs named PMID:20069535