BASE - BioArray Software Environment

BASE is a comprehensive free web-based database LIMS solution for tracking of information and data generated in sequencing and microarray experiments from sample to analysis. BASE is released under the ​GNU General Public License version 3.

Download

Go the DownloadPage to download the latest release of BASE.

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.

• 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.

• Historical - Old documents that are no longer updated but still have some kind of informative value.

How to cite BASE?

Johan Vallon-Christersson, Nicklas Nordborg, Martin Svensson and Jari Häkkinen
BASE - 2nd generation software for microarray data management and analysis
BMC Bioinformatics 2009, 10:330 ​Take me to the article

Credits

Many people have contributed to BASE, and we keep a list of contributors in credits.txt​. Thank you for helping us to improve BASE.

BASE demo server

We have set up a ​BASE demo server (currently down) 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.

Plug-ins

• Core plug-ins are included in a standard BASE installation. Many of these have to be configured before use.
• The ​BASE plug-ins web site contains contributed plug-ins and plug-ins that depends on non-Java based software packages. They have to be installed separately after setting up a BASE server.

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