URL: http://www.bioconductor.org/packages/release/bioc/html/SCAN.UPC.html
Proper Citation: SCAN.UPC (RRID:SCR_001334)
Description: A microarray normalization software (SCAN) to facilitate personalized-medicine workflows with an extension (UPC) that estimates whether a given gene/transcript is active above background levels in a given sample. Rather than processing microarray samples as groups, which can introduce biases and present logistical challenges, SCAN normalizes each sample individually by modeling and removing probe- and array-specific background noise using only data from within each array. SCAN can be applied to one-channel (e.g., Affymetrix) or two-channel (e.g., Agilent) microarrays. The UPC method can be applied to one-channel or two-channel microarrays as well as to RNA-Seq read counts. Because UPC values are represented on the same scale and have an identical interpretation for each platform, they can be used for cross-platform data integration. A
Abbreviations: SCAN.UPC
Synonyms: Single-channel array normalization (SCAN) and Universal exPression Codes (UPC), Single-channel array normalization and Universal exPression Codes
Resource Type: software resource
Keywords: microarray, one channel, preprocessing, rna-seq, two channel
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