BASE - BioArray Software Environment

BASE is a comprehensive free web-based database solution for the massive amounts of data generated by microarray analysis. BASE is released under the ​GNU General Public License version 3.

Documentation

• BASE documentation exists in different versions and formats. We provide links to the latest stable release branch documentation here:

​BASE manual (html) or ​(pdf).

The ​getting started section may be extra useful for beginners.

• Features - Lists the most important features in BASE together with some nice screen shots.

• Developer information - Information for the BASE core and plugin developers. Here you will find information about the database schema, inner workings of the core, how to create plugins, how to contribute, and lots more.

• Future development - The time plans can be monitored through the milestone list in the ​Roadmap tab above.

• ​Project code statistics provided by ​svndigest. Svndigest calculates for each developer the number of contributed lines from a specific revision, and compiles some overall statistics. (Not continuously updated at the moment).

• Historical - Old documents that are no longer updated but still have some kind of informative value.

How to cite BASE?

Lao H. Saal, Carl Troein, Johan Vallon-Christersson, Sofia Gruvberger, Åke Borg and Carsten Peterson
BioArray Software Environment: A Platform for Comprehensive Management and Analysis of Microarray Data
Genome Biology 2002 3(8): software0003.1-0003.6

BASE demo server

We have set up a ​BASE demo server for those of you who want to try out BASE. For people without any account information we have added a user base2 with password base2 (valid on both servers). The base2 user has read privileges to all data on the demo server.

Download

The forthcoming release schedule is published under the ​roadmap tab above. Go the DownloadPage to download the latest release of BASE.

Plug-ins

Many plug-ins are installed with the core install of BASE but many of these have to be configured before use. We maintain a list of ​core plug-ins and have a collection of sample configuration files. Contributed plug-ins and plug-ins that depends on non-Java based software packages have to be installed separately after setting up a BASE server. There is a ​BASE plug-ins web site for maintaining these add-on plug-ins.

Feedback

Please use the BASE mailing lists for discussions about BASE. You have to login to this trac environment to be able report bugs, enhancement ideas, and feature requests. Login with userid base and password base and use the ​ticket reporting system.

Mailing lists

There are three ​Sourceforge hosted mailing lists for the BASE project.

License

BASE is an open source project and available for free under the ​GNU General Public License version 3.

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The Lund BASE team sponsors


​Lund University ​IST ​ACGT