deSet-class

The <code>deSet</code> class extends the <code><a href="/link/ExpressionSet?package=edge&version=2.4.2" rd-options="" data-mini-rdoc="edge::ExpressionSet">ExpressionSet</a></code> class.
While the <code>ExpressionSet</code> class contains information about the
experiment, the <code>deSet</code> class contains both experimental information and
additional information relevant for differential expression analysis, 
explained below in Slots.

The edge package implements methods for carrying out differential
    expression analyses of genome-wide gene expression studies. Significance testing
    using the optimal discovery procedure and generalized likelihood ratio tests
    (equivalent to F-tests and t-tests) are implemented for general study designs.
    Special functions are available to facilitate the analysis of common study
    designs, including time course experiments. Other packages such as snm, sva,
    and qvalue are integrated in edge to provide a wide range of tools for gene
    expression analysis.

John D Storey

edge

Extraction of Differential Gene Expression

deSet-class function

The <code>deSet</code> class extends the <code><a href="ExpressionSet" rd-options="">ExpressionSet</a></code> class.
While the <code>ExpressionSet</code> class contains information about the
experiment, the <code>deSet</code> class contains both experimental information and
additional information relevant for differential expression analysis, 
explained below in Slots.

deSet-class: The differential expression class (deSet)

Description

Arguments