sumSAM-class {siggenes}R Documentation

Class sumSAM

Description

This class is just used for a nicer output of the summary of an SAM-class object.

Objects from the Class

Objects can be created by calls of the form new("sumSAM", ...) or by using the function summary(object) when object is an SAM-class object.

Slots

row.sig.genes:
Object of class "numeric" consisting of the row numbers of the significant genes in the data matrix
mat.fdr:
Object of class "matrix" containing general information as the number of differentially expressed genes and the estimated FDR for either one or several values of Delta.
mat.sig:
Object of class "data.frame" containing gene-specific statistics as the d-values and the q-values of the differentially expressed genes.
list.args:
Object of class "list" consisting of some of the specified arguments of summary needed for internal use.

Methods

print
signature(x = "sumSAM"): Prints the output of the SAM-specific method summary.
show
signature(object = "sumSAM"): Shows the output of the summary of a SAM analysis.

Note

SAM was developed by Tusher et al. (2001).

!!! There is a patent pending for the SAM technology at Stanford University. !!!

Author(s)

Holger Schwender, holger.schw@gmx.de

See Also

SAM-class, summary,SAM-method


[Package siggenes version 1.4.0 Index]