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- Title
fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays.
- Authors
McCall, Matthew N.; Jaffee, Harris A.; Irizarry, Rafael A.
- Abstract
Summary: Frozen robust multiarray analysis (fRMA) is a single-array preprocessing algorithm that retains the advantages of multiarray algorithms and removes certain batch effects by downweighting probes that have high between-batch residual variance. Here, we extend the fRMA algorithm to two new microarray platforms—Affymetrix Human Exon and Gene 1.0 ST—by modifying the fRMA probe-level model and extending the frma package to work with oligo ExonFeatureSet and GeneFeatureSet objects.Availability and implementation: All packages are implemented in R. Source code and binaries are freely available through the Bioconductor project. Convenient links to all software and data packages can be found at http://mnmccall.com/softwareContact: mccallm@gmail.com
- Subjects
MICROARRAY technology; ROBUST control; GENETICS; ALGORITHMS; ANALYSIS of variance; BIOCONDUCTOR (Computer software)
- Publication
Bioinformatics, 2012, Vol 28, Issue 23, p3153
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/bts588