Difference between revisions of "Galaxy"
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Revision as of 22:02, 11 May 2011
__NOTITLE__
- Mature release
- Active development
- Active support
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 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 downloading the Galaxy application and customizing it to meet particular needs.
Contents
2011 Galaxy Community Conference
The 2011 Galaxy Community Conference will be held 25-26 May, at the Conference Centre De Werelt in Lunteren, The Netherlands. This year the conference is co-organized by the Netherlands Bioinformatics Centre (NBIC). The conference features 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. If you have or intend to deploy Galaxy, or if you are a tool developer or a data provider then you are strongly encouraged to attend.
Deadlines
| February 28 | Abstract Submission Deadline |
| May 1 | Early Registration Deadline |
| May 17 | Final Registration Deadline |
Demo & Screencasts
Try the public Galaxy server. You can create a login and save your work, or use it anonymously. Short screencasts on how to use Galaxy for several example tasks are also available.
Requirements
- Python version 2.4 or higher
- Mac OS X currently requires Universal "Fat" Python 2.4 (the Python 2.4 build officially supported by Apple) from http://macpython.org/ (direct link)
- Galaxy runs fine in most Posix environments. It is not currently supported on Windows platforms, but necessary Python eggs can be built by those desiring to host it on Windows.
Documentation
- Most Galaxy documentation is in the Galaxy Wiki.
- 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, Daniel Blankenberg, Istvan Albert, James Taylor, Webb Miller, W. James Kent and Anton Nekrutenko, Genome Res. 15:1451-1455, 2005
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. Medium volume. | Nabble, Mailman |
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 located here.
