UniFilter-class: Class UniFilter

In xps: Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays

Description

Class UniFilter allows to apply different unitest filters to class ExprTreeSet, i.e. to the expression level data.frame data.

Objects from the Class

Objects can be created by calls of the form new("UniFilter", ...).
Alternatively, the contructor UniFilter can be used.

Slots

foldchange:

Object of class "list" describing parameters for fcFilter.

prescall:

Object of class "list" describing parameters for callFilter.

unifilter:

Object of class "list" describing parameters for unitestFilter.

unitest:

Object of class "list" describing parameters for uniTest.

numfilters:

Object of class "numeric" giving the number of filters applied.

Extends

Class "Filter", directly.

Methods

callFilter

signature(object = "UniFilter"): extracts slot prescall.

callFilter<-

signature(object = "UniFilter", value = "character"): replaces slot prescall with character vector c(cutoff, samples, condition).

fcFilter

signature(object = "UniFilter"): extracts slot foldchange.

fcFilter<-

signature(object = "UniFilter", value = "numeric"): replaces slot foldchange with numeric vector c(cutoff, direction).

uniTest

signature(object = "UniFilter"): extracts slot unitest.

uniTest<-

signature(object = "UniFilter", value = "character"): replaces slot unitest with character vector c(type, alternative, correction, numperm, mu, paired, conflevel, varequ).

unitestFilter

signature(object = "UniFilter"): extracts slot unifilter.

unitestFilter<-

signature(object = "UniFilter", value = "character"): replaces slot unifilter with character vector c(cutoff, variable).

Author(s)

Christian Stratowa

See Also

related classes Filter, PreFilter.

Examples

unifltr <- new("UniFilter", unitest=list("t.test"))
fcFilter(unifltr) <- c(1.5,"both")
unitestFilter(unifltr) <- c(0.01,"pval")
str(unifltr)

xps documentation built on Nov. 8, 2020, 6 p.m.