Simpleaffy: a BioConductor package for Affymetrix Quality Control and data analysis

Abstract

Quality Control is a fundamental aspect of successful microarray data analysis. Simpleaffy is a BioConductor package that provides access to a variety of QC metrics for assessing the quality of RNA samples and of the intermediate stages of sample preparation and hybridization. Simpleaffy also offers fast implementations of popular algorithms for generating expression summaries and detection calls. Simpleaffy can be downloaded from http://www.bioconductor.org. Additional information can be found on the supplementary website located at http://bioinformatics.picr.man.ac.uk.