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Knime provides powerful and flexible means to mine data. However, as many methods are implemented just for data modeling languages like R or Matlab, it is crucial to integrate these languages into Knime. To some extent this is already possible. However, from our daily work we have learned that many users need to use scripts without having any background in scripting. Thus we implemented a new open source scripting integration framework for Knime, which is based on RGG templates [1]. Its main purpose is to hide the script complexity behind a user-friendly graphical interface. Furthermore, our approach goes beyond the existing integration of R as it provides better and more flexible graphics support, flow variable support and an easy-to-extend server-based script template repository.

1 RGG: A general GUI Framework for R scripts; Ilhami Visne, Bioinformatics, 2009, 10:74



USEFUL LINKS

The framework these plugins are for: www.knime.org
RGG fork: https://github.com/knime-mpicbg/rgg
Templates galleries: http://idisk-srv1.mpi-cbg.de/knime/scripting-templates_public/figure-template-gallery.html
                     http://idisk-srv1.mpi-cbg.de/knime/scripting-templates_public/script-template-gallery.html



DEVELOPMENT

Since KNIME is an Eclipse application it is easiest to use that IDE.
1) Clone this repository
2) In Eclipse Import>General>Existing Project into Workspace
3) Make sure the project is compiled with Java SE 1.6 (Preferences>Compiler)

Debug Configuration:
Main Tab:
	Run a Product: org.knime.product.KNIME_PRODUCT
	Runtime JRE: 1.6
Arguments Tab:
	Add “-XX:MaxPermSize=256m “ to the VM Arguments



INSTALLATION

Once KNIME is installed you have the following possibilities:
1) The easiest is to use the p2 update mechanism of KNIME (Help > Install new Software). Find the detailed instructions on the KNIME community site: site: http://tech.knime.org/community-contributions-info.
2) Use eclipse to build the plugins yourself and add them to the plugin directory of the KNIME installation.



LICENSE

Copyright (c) 2010, Max Planck Institute of Molecular Cell Biology and Genetics, Dresden
All rights reserved.

Source code contained in the directories groovy4knime, python-server, pyhton4knime and r4knime is distributed under GPL3 license.

Source code contained in the directories matlab-server and the "matlab4knime" nodes are distributed under the BSD license.