semantic colors {PreProcess}R Documentation

Pre-defined colors for microarray plots

Description

A collection of predefined color names to help ensure consistency in multiple graphical displays of microarray data.

COLOR.BORING:
Used to mark uninteresting points in a plot; gray.
COLOR.SIGNIFICANT:
Used to mark points that are statistically significant; red
COLOR.EXPECTED:
Used to draw curves representing an expected distribution; blue
COLOR.OBSERVED:
Used to draw curves indicating the observed distribution; darkgreen
COLOR.PERMTEST:
Used to draw curves indicating distributions derived from a permutaion test; magenta
COLOR.FITTED:
Used to draw curves obtained by some fitting procedure, such as loess; orange
COLOR.CENTRAL.LINE:
Used to draw lines through the centers of distributions or expected values; blue
COLOR.CONFIDENCE.CURVE:
Used to draw confidence bounds around curves; red3
COLOR.BAD.REPLICATE:
Used to indicate highly variable points; purple1
COLOR.WORST.REPLICATE:
Used to mark extraordinarily variable points; purple3
COLOR.FOLD.DIFFERENCE:
Used to indicate points with large fold difference; skyblue
COLOR.BAD.REPLICATE.RATIO:
Used to flag points for which the ratios at replicate spots are highly variable; violetred
COLOR.TOP.TEN:
Used to mark points in the "top ten" list; cadetblue
COLOR.BOTTOM.TEN:
Used to mark points in "bottom ten" list of most underexpressed genes; pink
COLOR.BOTTOM.TEN.SOLO:
Use unknown; palegreen
COLOR.TOP.TEN.SOLO:
Use unknown; deeppink

Examples

x <- seq(0, 2*pi, by=0.1)
plot(x, sin(x), col=COLOR.BORING)

[Package PreProcess version 1.2 Index]