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Bioinformatics Advance Access published online on September 28, 2004
Bioinformatics, doi:10.1093/bioinformatics/bti052
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received July 17, 2004
Accepted September 22, 2004

Applications note

arrayMagic: two-colour cDNA microarray quality control and preprocessing

Andreas Buneß 1*, Wolfgang Huber 1, Klaus Steiner 1, Holger Sültmann 1, and Annemarie Poustka 1

1 Department of Molecular Genome Analysis, German Cancer Research Center, INF 580, Heidelberg, 69120, Germany

* To whom correspondence should be addressed. E-mail: a.buness{at}dkfz.de.


  Abstract

Summary: arrayMagic is a software package for quality control and preprocessing of two-colour cDNA microarray data. The automated analysis pipeline comprises data import, normalisation, replica merging, quality diagnostics and data export. The script based processing combines reproducibility and flexibility at high throughput and provides quality assured and preprocessed microarray data to high-level follow-up analysis.

Availability: The R package arrayMagic is available with BSD license at http://www.bioconductor.org.

Supplementary Information: The package contains documentation in the form of manual pages and a vignette with a guided tour of a typical workflow.


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