Bioconductor-mirror/dyebias: The GASSCO method for correcting for slide-dependent gene-specific dye bias
Version 1.37.0

Many two-colour hybridizations suffer from a dye bias that is both gene-specific and slide-specific. The former depends on the content of the nucleotide used for labeling; the latter depends on the labeling percentage. The slide-dependency was hitherto not recognized, and made addressing the artefact impossible. Given a reasonable number of dye-swapped pairs of hybridizations, or of same vs. same hybridizations, both the gene- and slide-biases can be estimated and corrected using the GASSCO method (Margaritis et al., Mol. Sys. Biol. 5:266 (2009), doi:10.1038/msb.2009.21)

Getting started

Package details

AuthorPhilip Lijnzaad and Thanasis Margaritis
Bioconductor views Microarray Preprocessing QualityControl TwoChannel
MaintainerPhilip Lijnzaad <[email protected]>
LicenseGPL-3
Version1.37.0
URL http://www.holstegelab.nl/publications/margaritis_lijnzaad
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("Bioconductor-mirror/dyebias")
Bioconductor-mirror/dyebias documentation built on June 1, 2017, 7:37 a.m.