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Geertjan's Blog

  • June 3, 2014

New DNA Sequence Analysis on the NetBeans Platform

Geertjan Wielenga
Product Manager

ReadXplorer provides straightforward visualization and extensive analysis functions for genomic and transcriptomic DNA sequences mapped on a reference. A unique specialty of ReadXplorer is the quality classification of the read mappings.

Above you see the main window with one opened reference and three (two of them are visible) opened track data sets. The mapped reads are classified into three different mapping classes (green - perfect match, yellow - best match, red - common match).

The software extracts and adds quantity and quality measures to each alignment in
order to classify the mapped reads. This classification is then taken
into account for the different data views and all supported automatic
analysis functions.

ReadXplorer is implemented in Java on the
NetBeans Platform. Utilizing the NetBeans Platform's modular programming
structure, it enables developers to create their own highly specialized
software modules and easily plug them into ReadXplorer.

It is created by Rolf Hilker at the University of Giessen.

More info:

http://bioinformatics.oxfordjournals.org/content/early/2014/05/21/bioinformatics.btu205.abstract

http://www.uni-giessen.de/fbz/fb08/Inst/bioinformatik/software/ReadXplorer

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