RLE {Agi4x44PreProcess} | R Documentation

## Relative Log Expression

### Description

RLE: Relative Log Expression

### Usage

    RLE(object, maintitle, colorfill)

### Arguments

`object` | An expression matrix, in log2 scale
`maintitle` | title of the plot
`colorfill` | color of the plot

### Details

Each Boxplot corresponds to a sample and displays the Relative Log Expression computed for every spot in the array as the difference between the spot intensity and the median intensity for the same feature accros all the arrays. Since majority of the spots are expected not to be differentially expressed, the plot shoud show boxplots centered around zero and all of them having the aproximately the same dispersion. An array showing greater dispersion than the other, or being not centered at zero could have quality problems.

### Author(s)

Pedro Lopez-Romero

### References

Boldstad B.M., Collin F., Brettschneider J., Simpson, K., Cope L., Irizarry R. A., Speed T. P. Quality Assesement of Affymetrix GeneChip Data. In Bioinformatics and Computational Biology Solutions Using R and Bioconductor. (eds.) Gentleman R., Carey V. J., Huber W., Irizarry R. A., Dudoit S. (2005). Springer.

### Examples

    ## Not run:
                    data(dd)
                    maintitle="RLE example "
                    colorfill="orange"
                    RLE(log2(dd$G),maintitle,colorfill)
    ## End(Not run)

[Package Agi4x44PreProcess version 1.4.0 Index]