plot.spotseg: Microarray Spot Segmentation Plot

In spotSegmentation: Microarray Spot Segmentation and Gridding for Blocks of Microarray Spots

Description

Plot method for the spotseg function. Displays the result obtained from microarray spot segmentation via model-based clustering.

Usage

## S3 method for class 'spotseg'
plot(x,...)

Arguments

x	An object of class "spotseg", which is the output of the function spotseg.
...	Unused but required by generic "plot" method.

Value

None, other than the displayed plot.

References

Q. Li, C. Fraley, R. Bumgarner, K. Y. Yeung, and A. Raftery\ Robust model-based segmentation of microarray images,\ Technical Report No.~473, Department of Statistics, University of Washington, January 2005.

See Also

spotseg

Examples

data(spotSegTest)

# columns of spotSegTest:
#  1 intensities from the Cy3 (green) channel
#  2 intensities from the Cy5 (red) channel

dataTransformation <- function(x) (256*256-1-x)^2*4.71542407E-05 

chan1 <- matrix(dataTransformation(spotSegTest[,1]), 144, 199)
chan2 <- matrix(dataTransformation(spotSegTest[,2]), 144, 199)

hivGrid <- spotgrid( chan1, chan2, rows = 4, cols = 6, show = TRUE)

library(mclust)

hivSeg <- spotseg( chan1, chan2, hivGrid$rowcut, hivGrid$colcut)

plot(hivSeg)

spotSegmentation documentation built on April 28, 2020, 9:18 p.m.