Spot-class {genArise}R Documentation

Spot - class

Description

A simple list-based class for storing red and green channel foreground and background intensities for a batch of spotted microarrays and the Ids.

Creating Objects from the Class

Objects can be created by calls of the form new("Spot",spot) where spot is a list. Objects are normally created by read.spot.

Slots/List Components

This class contains no slots (other than .Data), but objects should contain the following list components:
Cy5: numeric matrix containing the red (cy5) foreground intensities. Rows correspond to spots and columns to arrays.
Cy3: numeric matrix containing the green (cy3) foreground intensities.
BgCy5: numeric matrix containing the red (cy5) background intensities.
BgCy3: numeric matrix containing the green background intensities.
Id: Ids from all the observations.

All of these matrices should have the same dimensions.

Methods

This class inherits directly from class list so any operation appropriate for lists will work on objects of this class.


[Package genArise version 1.0.0 Index]