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]