Object Oriented Microarray Library: Replicate Pattern

The replicate pattern module provides the definition of the replicate.pattern class. See the bottom of the page for an example of how the class can be used.

Attributes

first

A vector of values representing one member of each pair of replicates.

second

A vector of values representing the other member of each pair of replicates.

Methods

get.replicate.pattern(chan, ...)

Constructor; this is a new method.. The first (required) argument is a channel object.

print(object, ...)

Print all the information from the object.

summary(object, ...)

Write out a summary of the object.

plot(object, ccl, ...)

Produce a scatter plot of the object, with color coding if the optional ccl argument is supplied.

score.replicate.pattern(object)

Compute the smoothed fit of standard deviation as a function of the mean expression value for the object. The return value is an object of class single.group

Description

An object of the replicate.pattern class only makes sense in the context of the microarrays produced in the Cancer Genomics Core Laboratory at The UT M.D.Anderson Cancer Center, where every gene is spotted in duplicate. The replicate patterns are differnt on CG4 and CG8 arrays, which is why this class is essentially an abstraction.