DataSet-class {genArise}R Documentation

DataSet - class

Description

A simple list-based class for storing red and green channel foreground, z-scores and the Ids.

Creating Objects from the Class

Objects can be created by calls of the form new("DataSet",sets, type) where sets is a list containing Cy3, Cy5, Id and Zscore and type is "ri" or "ma". 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.
Id: Ids from all the observations.
Zscore: The result of (R - mean) / sd that define an intensity-dependent Z-score threshold to identify differential expression.

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]