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

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...

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Bibliographic Details
Published in:Bioinformatics 2005-09, Vol.21 (18), p.3683-3685
Main Authors: Wilson, Claire L., Miller, Crispin J.
Format: Article
Language:English
Subjects:
Biological and medical sciences
Computational Biology - methods
Computer Graphics
Computer Simulation
Database Management Systems
Fundamental and applied biological sciences. Psychology
Gene Expression Profiling
General aspects
Humans
Information Storage and Retrieval
Internet
Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects)
Nucleic Acid Hybridization
Oligonucleotide Array Sequence Analysis - instrumentation
Oligonucleotide Array Sequence Analysis - methods
Quality Control
RNA - chemistry
Sequence Analysis, DNA
Software
Statistics as Topic - methods
User-Computer Interface
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Description
Summary: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. Availability: Simpleaffy can be downloaded from http://www.bioconductor.org Contact: cmiller@picr.man.ac.uk Supplementary information: Additional information can be found on the supplementary website located at http://bioinformatics.picr.man.ac.uk
ISSN:1367-4803
1460-2059
1367-4811
DOI:10.1093/bioinformatics/bti605