dyebias - The GASSCO method for correcting for slide-dependent gene-specific dye bias
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)
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microarraytwochannelqualitycontrolpreprocessing
3.45 score 14 scripts 664 downloadsdyebiasexamples - Example data for the dyebias package, which implements the GASSCO method.
Data for the dyebias package, consisting of 4 self-self hybrizations of self-spotted yeast slides, as well as data from Array Express accession E-MTAB-32
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experimentdatasagedatacghdatamicroarraydatatwochanneldataarrayexpressdatapkg
2.30 score 10 scripts