bioconda / packages / bioconductor-scan.upc 2.22.0

SCAN is a microarray normalization method to facilitate personalized-medicine workflows. 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 Universal exPression Codes (UPC) method is an extension of SCAN that estimates whether a given gene/transcript is active above background levels in a given sample. 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.

Installers

Info: This package contains files in non-standard labels.

conda install

  • linux-64  v2.22.0
  • osx-64  v2.22.0
To install this package with conda run one of the following:
conda install -c bioconda bioconductor-scan.upc
conda install -c bioconda/label/gcc7 bioconductor-scan.upc

Description

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