CGH-Plotter: MATLAB toolbox for CGH-data analysis

Reija Autio; Sampsa Hautaniemi; Päivikki Kauraniemi; Olli Yli-Harja; Jaakko Astola; Maija Wolf; Anne Kallioniemi

doi:10.1093/bioinformatics/btg230

CGH-Plotter: MATLAB toolbox for CGH-data analysis

Bioinformatics. 2003 Sep 1;19(13):1714-5. doi: 10.1093/bioinformatics/btg230.

Authors

Reija Autio¹, Sampsa Hautaniemi, Päivikki Kauraniemi, Olli Yli-Harja, Jaakko Astola, Maija Wolf, Anne Kallioniemi

Affiliation

¹ Institute of Signal Processing, Tampere University of Technology, 33101 Finland.

PMID: 15593402
DOI: 10.1093/bioinformatics/btg230

Abstract

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.

MeSH terms

Cluster Analysis
Data Display*
Data Interpretation, Statistical*
Hybridization, Genetic / genetics*
Internet
Protein Array Analysis / methods*
Research Design
Signal Processing, Computer-Assisted
User-Computer Interface*