bio3d (version 2.3-0)

bwr.colors: Color Palettes

Description

Create a vector of ‘n’ “contiguous” colors forming either a Blue-White-Red or a White-Gray-Black color palette.

Usage

bwr.colors(n)
mono.colors(n)

Arguments

n

the number of colors in the palette (>=1).

Value

Returns a character vector, cv, of color names. This can be used either to create a user-defined color palette for subsequent graphics with palette(cv), or as a col= specification in graphics functions and par.

Details

The function bwr.colors returns a vector of n color names that range from blue through white to red. The function mono.colors returns color names ranging from white to black. Note: the first element of the returned vector will be NA.

References

Grant, B.J. et al. (2006) Bioinformatics 22, 2695--2696.

The bwr.colors function is derived from the gplots package function colorpanel by Gregory R. Warnes.

See Also

vmd_colors, cm.colors, colors, palette, hsv, rgb, gray, col2rgb

Examples

# Redundant testing excluded

# Color a distance matrix
pdb <- read.pdb( system.file("examples/1hel.pdb", package="bio3d") )
d <- dm(pdb,"calpha")

plot(d, color.palette=bwr.colors)

plot(d,
     resnum.1 = pdb$atom[pdb$calpha,"resno"],
     color.palette = mono.colors,
     xlab="Residue Number", ylab="Residue Number")