Automated Microarray Image Analysis Toolbox for MATLAB

• Published in: Bioinformatics Vol. 21; no. 17; pp. 3578 - 3579
• Main Authors: White, Amanda M., Daly, Don S., Willse, Alan R., Protic, Miroslava, Chandler, Darrell P.
• Format: Journal Article
• Language: English
• Published: Oxford Oxford University Press 01.09.2005; Oxford Publishing Limited (England)
• Subjects: Algorithms; Amia; Artificial Intelligence; Biological and medical sciences; Cluster Analysis; Fundamental and applied biological sciences. Psychology; Gene Expression Profiling - methods; General aspects; Image Interpretation, Computer-Assisted - methods; In Situ Hybridization, Fluorescence - methods; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Microscopy, Fluorescence - methods; Oligonucleotide Array Sequence Analysis - methods; Pattern Recognition, Automated - methods; Programming Languages; Software; Statistics; Image analysis; Automation; Quality; Data processing; Identification; Method; Microarray; Bioinformatics; Statistics
• ISSN: 1367-4803; 0266-7061; 1460-2059; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/bti576

The Automated Microarray Image Analysis (AMIA) Toolbox for MATLAB is a flexible, open-source, microarray image analysis tool that allows the user to customize analyses of microarray image sets. This tool provides several methods to identify and quantify spot statistics, as well as extensive diagnostic statistics and images to evaluate data quality and array processing. The open, modular nature of AMIA provides access to implementation details and encourages modification and extension of AMIA's capabilities. Availability: The AMIA Toolbox is freely available at http://www.pnl.gov/statistics/amia. The AMIA Toolbox requires MATLAB 6.5 (R13) (MathWorks, Inc. Natick, MA), as well as the Statistics Toolbox 4.1 and Image Processing Toolbox 4.1 for MATLAB or more recentversions. Contact: amanda.white@pnl.gov