CGH-Plotter: MATLAB toolbox for CGH-data analysis

Abstract

Summary: CGH-Plotter is a MATLAB toolbox with a graphical user interface for the analysis of comparative genomic hybridization (CGH) microarray data. CGH-Plotter provides a tool for rapid visualization of CGH-data according to the locations of the genes along the genome. In addition, the CGH-Plotter identifies regions of amplifications and deletions, using k-means clustering and dynamic programming. The application offers a convenient way to analyze CGH-data and can also be applied for the analysis of cDNA microarray expression data. CGH-Plotter toolbox is platform independent and requires MATLAB 6.1 or higher to operate.

Availability:http://sigwww.cs.tut.fi/TICSP/CGH-Plotter

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Author notes

1Institute of Signal Processing, Tampere University of Technology, PO Box 553, 33101 Tampere, Finland, 2Medical Biotechnology Group, VTT Technical Research Centre of Finland, PO Box 106, FIN-20521 Turku, Finland and 3Laboratory of Cancer Genetics, Institute of Medical Technology, University of Tampere and Tampere University Hospital FIN-33520 Tampere, Finland