bwr.colors {bio3d}

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).

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.

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.

Author(s)

Barry Grant

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")