maDefaultPar {marray} | R Documentation

## Default graphical parameters for microarray objects

### Description

This function returns default graphical parameters for microarray objects. The parameters may be passed as arguments to the functions `maBoxplot` and `maPlot`.

### Usage

    maDefaultPar(m, x, y, z)

### Arguments

`m` | Microarray object of class `"marrayRaw"` and `"marrayNorm"`.
`x` | Name of accessor method for the abscissa spot statistic, typically a slot name for the microarray object `m`, such as `maA`.
`y` | Name of accessor method for the ordinate spot statistic, typically a slot name for the microarray object `m`, such as `maM`.
`z` | Name of accessor method for the spot statistic used to stratify the data, typically a slot name for the microarray layout object (see `"marrayLayout"`) such as `maPlate` or a method such as `maPrintTip`.

### Value

A list with elements

`def.box` | default graphical parameters for `maBoxplot`.
`def.plot` | default graphical parameters for `maPlot`.
`def.lines` | default graphical parameters for functions such as `maLoessLines` used in `maPlot`.
`def.legend` | default graphical parameters for functions such as `maLegendLines` used in `maPlot`.
`def.text` | default graphical parameters for functions such as `maText` used in `maPlot`.

### Author(s)

Sandrine Dudoit, http://www.stat.berkeley.edu/~sandrine.

### References

S. Dudoit and Y. H. Yang. (2002). Bioconductor R packages for exploratory analysis and normalization of cDNA microarray data. In G. Parmigiani, E. S. Garrett, R. A. Irizarry and S. L. Zeger, editors, The Analysis of Gene Expression Data: Methods and Software, Springer, New York.

### See Also

`maBoxplot`, `maPlot`, `maLegendLines`, `maLoessLines`, `maText`, `maDotsDefaults`.

### Examples

    # See examples for maPlot.

[Package marray version 1.14.0 Index]