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Table 6 Characteristics of MAS5, RMA and dChip

From: A Bayesian calibration model for combining different pre-processing methods in Affymetrix chips

 

Background correction

Perfect Match correction

Normalisation

Summary

MAS5

Divide the chip in 16 regions. The lowest 2% is the background. Weighted average over all the regions.

Ideal Mismatch

Scaling

1 step Tukey Biweight

RMA

Global model for the distribution of the probe intensities

No correction

Quantile

Median Polish

dChip

No correction

No correction

Invariant set using one array as default

Multi-chip linear model

  1. Characteristics of MAS5, RMA and dChip in terms of perfect match correction, normalization and summarization method.