title: fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays.
abstract: CONCLUSIONS
  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.
  
  
  METHODS
  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/software
  
  
  BACKGROUND
  mccallm@gmail.com.
authors.affiliation: Department of Biostatistics and Computational Biology, University of Rochester Medical Center, 265 Crittenden Blvd., CU 420630, Rochester, NY 14642, USA. mccallm@gmail.com
authors.forename: Matthew N
authors.initials: MN
authors.lastname: McCall
authors.forename: Harris A
authors.initials: HA
authors.lastname: Jaffee
authors.forename: Rafael A
authors.initials: RA
authors.lastname: Irizarry
mesh_terms: D000465:Algorithms; D017398:Alternative Splicing; D019295:Computational Biology / Q000379:methods; D005091:Exons; D006801:Humans; D008962:Models, Theoretical; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D015345:Oligonucleotide Probes / Q000235:genetics; D012984:Software
chemical_list: D015345:Oligonucleotide Probes