fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays.
basic_science · Level V
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- Record sourced from PubMed, PMID 23044545.
- Also identified by DOI 10.1093/bioinformatics/bts588 and PMC identifier 3509489.
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Abstract
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. 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 mccallm@gmail.com.
Medical subject headings
- Algorithms
- Oligonucleotide Array Sequence Analysis
- Software