exprSet2-class {limma}R Documentation

Expression Set - class

Description

A class for storing intensity values from microarray experiments. This class is similar to exprSet.

This class is not currently used in the limma package. It is an experimental class to investigate the possibility of a unified data class structure for single-channel and log-ratio analyses of spotted microarray data.

Slots

expressions
matrix containing intensity data on log-2 scale. For two-color arrays, odd columns will usually correspond to channel 1 (green) and even columns to channel 2 (red) for different arrays.
weights
matrix containing non-negative quality weights
targets
data.frame containing factors corresponding to the columns of expressions
probes
data.frame containing gene IDs or annotation information. Should have same number of rows as expression
printer
list containing information about the printing process
notes
character

Methods

exprSet2 objects inherit a show method from the virtual class LargeDataObject, which means that exprSet2 objects will print in a compact way.

Author(s)

Gordon Smyth

See Also

02.Classes gives an overview of all the classes defined by this package.

exprSet is the corresponding class in the Biobase package.


[Package limma version 2.4.7 Index]