Table 5

Pre-processing methods

Preprocessing

Method

Background correction

Normalization

Summarization

RMA

Global correction from posterior mean given the observed PM

Quantile: intensities quantiles

Average

Linear model including array and probe effects fitting by median polish

Quantile -MBEI

-

Quantile: baseline intensities

Model assuming multiplicative probe effect and additive error

FrozenRMA

RMA-like

Quantile: reference distribution intensity

RMA-like including batch effect in the model

Bevilacqua et al. BMC Bioinformatics 2012 13(Suppl 7):S9   doi:10.1186/1471-2105-13-S7-S9