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}}} = 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 [http://www.gnu.org/licenses/gpl.html 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: [http://base.thep.lu.se/chrome/site/latest/html/index.html BASE manual (html)] or [http://base.thep.lu.se/chrome/site/latest/base.pdf (pdf)]. The [http://base.thep.lu.se/chrome/site/latest/html/userdoc/overview/userdoc_overview.html#userdoc_overview.start2work getting started section] may be extra useful for beginners. * [wiki:Features] - Lists the most important features in BASE together with some nice screen shots. * [wiki:DeveloperInformation 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 [http://base.thep.lu.se/roadmap Roadmap] tab above. * [http://cbbp.thep.lu.se/~jari/svndigest/base/ Project code statistics] provided by [http://dev.thep.lu.se/svndigest/ 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). * [wiki:Historical] - Old documents that are no longer updated but still have some kind of informative value.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 [[br]] '''BASE - 2nd generation software for microarray data management and analysis''' [[br]] ''BMC Bioinformatics'' 2009, 10:330 [http://www.biomedcentral.com/1471-2105/10/330 Take me to the article] === Credits === Many people have contributed to BASE 2.x, and we keep a list of contributors in [source:trunk/credits.txt credits.txt]. Thank you for helping us to improve BASE. == BASE demo server == We have set up a [http://base2.thep.lu.se/demo/ 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 [http://base.thep.lu.se/roadmap 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 [http://base.thep.lu.se/chrome/site/latest/html/appendix/appendix.coreplugins.html core plug-ins] and have a collection of [wiki:DocBookSupport 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 [http://baseplugins.thep.lu.se BASE plug-ins web site] for maintaining these add-on plug-ins. == Feedback == Please use the [wiki:MailingLists 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 [http://base.thep.lu.se/newticket ticket reporting system]. == Mailing lists == There are three [http://www.sourceforge.net Sourceforge] hosted [wiki:MailingLists mailing lists for the BASE project]. == License == BASE is an open source project and available for free under the [http://www.gnu.org/copyleft/gpl.html GNU General Public License version 3]. ---- The Lund BASE team sponsors [[br]] [[br]] [[Image(http://base.thep.lu.se/chrome/site/lu_logo_english.gif)]] [[Image(http://dev.thep.lu.se/acgt/chrome/site/ist_logo_small.jpg)]] [[Image(http://dev.thep.lu.se/acgt/chrome/site/acgt_small3.png)]] [[br]] [http://www.lu.se/ Lund University] [http://cordis.europa.eu/ist/ IST] [http://www.eu-acgt.org/ ACGT]