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ballaxy is a Galaxy-based workflow toolkit for structural bioinformatics.

The documentation of ballaxy (including download and installation instructions) can be found in our wiki.

For simple installation of the ballaxy server on a local machine, we provide docker images. These are in the beta stages, but can already be tried out. For instance,

docker run -p 8080:80 anhi/ballaxy

will download and run a ballaxy server that can be found at


Please note that this command creates a transient machine, and all changes (e.g., results of tool runs) will be deleted after the docker image stops. For more information and instructions on how to enable permanent storage please have a look at the repository info on our docker hub entry.

NOTE: the images require docker versions >= 1.0.1

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Moved to GitHub

October 19, 2015October 19, 2015
Source code, bugtracker, and wiki moved to GitHub!

Developer Retreat 2015.1

February 22, 2015February 22, 2015
BALL_Dev_Retreat_2015 We met in Saarbrücken to plan the further development of BALL. In the near future you will find more information on our new website. Code and bugtracker will move to GitHub!

ballaxy Tools Released

August 7, 2014August 7, 2014

A new release of BALL and BALLView containing our new ballaxy tools is availably.

This new release offers, besides bugfixes, our new ballaxy workflow framework for structure based computational biology. The framework consists of command line tools, a ballaxy workflow server, based on the popular Galaxy workflow engine, offering those tools and a ballaxy plugin for BALLView which allows interaction with a ballaxy server instance. More information, e.g. a list of current tools, our live ballaxy server or instructions on how to set up your own ballaxy instance using docker can be found here. Enjoy!

BALL 1.4 Released

January 28, 2013January 28, 2013

A new stable release for BALL is now available.

This new release mainly focuses on compile and bug fixes. The most user visible changes are probably the rework of the Pubchem Downloader in BALLView, which now uses the new REST interface provided by Pubchem.