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.
Class Name: cg4.replicate
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.