maPalette: Microarray color palette

In marray: Exploratory analysis for two-color spotted microarray data

Description

This function returns a vector of color names corresponding to a range of colors specified in the arguments.

Usage

maPalette(low = "white", high = c("green", "red"), mid=NULL, k =50)

Arguments

low	Color for the lower end of the color palette, specified using any of the three kinds of R colors, i.e., either a color name (an element of colors), a hexadecimal string of the form "#rrggbb", or an integer i meaning palette()[i].
high	Color for the upper end of the color palette, specified using any of the three kinds of R colors, i.e., either a color name (an element of colors), a hexadecimal string of the form "#rrggbb", or an integer i meaning palette()[i].
mid	Color for the middle portion of the color palette, specified using any of the three kinds of R colors, i.e., either a color name (an element of colors), a hexadecimal string of the form "#rrggbb", or an integer i meaning palette()[i].
k	Number of colors in the palette.

Value

A "character" vector of color names. This can be used to create a user-defined color palette for subsequent graphics by palette, in a col= specification in graphics functions, or in par.

Author(s)

Sandrine Dudoit, http://www.stat.berkeley.edu/~sandrine, Yee Hwa (Jean) Yang.

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

image, maColorBar, maImage, maImage.func.

Examples

par(mfrow=c(1,4))
pal <- maPalette(low="red", high="green")
maColorBar(seq(-2,2, 0.2), col=pal, horizontal=FALSE, k=21)
pal <- maPalette(low="red", high="green", mid="yellow")
maColorBar(seq(-2,2, 0.2), col=pal, horizontal=FALSE, k=21)
pal <- maPalette()
maColorBar(seq(-2,2, 0.2), col=pal, horizontal=FALSE, k=21)
pal <- maPalette(low="purple", high="purple",mid="white")
maColorBar(seq(-2,2, 0.2), col=pal, horizontal=FALSE, k=21)

Example output

Loading required package: limma

marray documentation built on Nov. 8, 2020, 6:46 p.m.