Biomedical Engineering Reference
In-Depth Information
6
Integrated data analysis with KNIME
Thorsten Meinl, Bernd Jagla and
Michael R. Berthold
Abstract:
In this chapter the open source data analysis platform
KNIME is presented. KNIME allows the user to create workfl ows
for processing and analyzing almost any kind of data. There is a
short introduction to KNIME and its key concepts such as nodes
and views, followed by a short review of KNIME's history, and the
origin and key aspects of its success today. Finally, several real-world
applications of KNIME are presented. These examples include
workfl ows from the fi elds of chemoinformatics and bioinformatics,
and image processing. All these workfl ows apply freely available
extensions to the basic KNIME distribution contributed by
community members.
Key words:
interactive data analysis, professional open source, life
science, workfl ow, chemoinformatics, bioinformatics, image processing.
6.1 The KNIME platform
The Konstanz Information Miner (KNIME) has been developed by the
Nycomed Chair for Bioinformatics and Information Mining at the
University of Konstanz since 2004. KNIME is open source and since
2010 it has been licensed under GPLv3. Therefore, for researchers, at
universities or in industry, it is a free yet powerful tool to perform
all kinds of data analysis. Based on the Eclipse platform (and thus Java)
it runs on every major operating system (Windows, Linux, and MacOS
X, both 32bit and 64bit) and is very easy to install - all users need
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