ColorCodedPair-class {oompaBase} | R Documentation |
Class "ColorCodedPair"
Description
This class represents a vector of (x,y) pairs, each of which should be plotted in a specific color with a specific symbol.
Usage
ColorCodedPair(x, y, ccl)
## S4 method for signature 'ColorCodedPair,missing'
plot(x, y, ...)
Arguments
x |
numeric vector (for |
y |
numeric vector |
ccl |
list of |
... |
additional arguments are as in the underlying generic methods. |
Details
It is often necessary with microarray data to produce multiple plots,
where each point on the plot corresponds to a gene or a spot on the
microarray. Across multiple plots, we often want to use symbols or colors
to mark subsets of he genes with certain properties. The
ColorCodedPair
class works in tandem with the
ColorCoding
class to make it easier to maintain consistent
plotting conventions across multiple graphs.
Value
The constructor returns a valid ColorCodedPair
object.
The plot
method invisibly returns the object being plotted.
Slots
x
numeric vector
y
numeric vector
colorCodingList
list of
ColorCoding
objects
Methods
- plot(object, ...)
Plot the
ColorCodedPair
object, with appropriate colors and symbols (of course).
Author(s)
Kevin R. Coombes krc@silicovore.com, P. Roebuck proebuck@mdanderson.org
See Also
Examples
showClass("ColorCodedPair")
theta <- (0:360)*pi/180
x <- cos(theta)
y <- sin(theta)
xp <- x > 0
yp <- y > 0
colors <- list(ColorCoding(xp&yp, oompaColor$EXPECTED),
ColorCoding(xp&!yp, oompaColor$OBSERVED),
ColorCoding(!xp&yp, oompaColor$PERMTEST),
ColorCoding(!xp&!yp, oompaColor$FITTED))
plot(ColorCodedPair(x, y, colors))
plot(ColorCodedPair(theta, x, colors))
plot(ColorCodedPair(theta, y, colors),
xlab='angle in radians', ylab='sine', main='colored sine')