[[BlogList(recent=5, max_size=250, format=float, heading=News, category=xgap)]]
= [wiki:xQTL xQTL workbench] - Manual =

New biotechnologies enable exciting QTL experiments that link genetic variation to 'all' gene expression, protein and metabolite traits.
Powerful software and hardware are available to analyze these new data but the considerable effort needed to configure pipelines, to scale
up processing and to track raw, intermediate and result data are a barrier for most except a small community of experts. Here we report
XGAP/cluster: a collaborative effort to bring seamless data management, advanced analytical pipelines and high throughput cluster computing
together in one box to biologists workbench.

[http://vm7.target.rug.nl/xqtl Try the online xQTL workbench demo][[BR]]
[http://vm7.target.rug.nl/xqtl_unstable Try the release candidate with the latest features][[BR]][[BR]]
[http://vm7.target.rug.nl/download/xqtl_workbench.zip Download xQTL workbench] (unzip, '''run.bat''' or '''run.sh''' to start, or check [wiki:xQTLAdministratorDownload Download instructions] for details)[[BR]]
[http://vm7.target.rug.nl/download/xqtl_workbench.zip Download unstable xQTL workbench]
 * [wiki:xQTL Table of Contents]
   * [wiki:xQTLIntroduction Introduction]
   * '''Biologist'''
     * [wiki:xQTLBiologistLogin Registration and login]
     * [wiki:xQTLBiologistBrowse Browse or search available data]
     * [wiki:xQTLBiologistImport Import new data]
     * [wiki:xQTLBiologistRun Run QTL mapping]
   * '''Bioinformatician'''
     * [wiki:xQTLBioinformaticianScript Add a new R script]
     * [wiki:xQTLBioinformaticianTag Tag data and configure parameters]
     * [wiki:xQTLBioinformaticianAnalysis Setup a new runnable analysis]
     * [wiki:xQTLBioinformaticianGalaxy Galaxy and Cloud]
   * '''Administrator'''
     * [wiki:xQTLAdministratorPermissions Manage users and permissions]
     * [wiki:xQTLAdministratorDatabase Manage database and storage]
     * [wiki:xQTLAdministratorInstall Installation and maintanance]
     * [wiki:xQTLAdministratorJobs Setup job submission]
     * [wiki:xQTLAdministratorDownload Download instructions]