Class "rpa"

Description

Class for the RPA package.

Objects from the Class

Objects can be created by calls of the form new("rpa", ...).

The class instance is a list that contains the following elements:

d

A matrix of probesets x arrays. Specifies the estimated 'true' underlying differential gene expression signal over the arrays (vs. the control array 'cind') for each investigated probeset. Note that the control array is not included.

sigma2

A list. Each element corresponds to a probeset, and contains a vector that gives the estimated variance for each probe in that probeset.

cind

Specifies which of the arrays in abatch was used as a control in computing probe-level differential expression.

sets

A character vector listing the investigated probesets.

Slots

Slots are not utilized here.

.Data:

Object of class "list"

Extends

Class "list", from data part. Class "vector", by class "list", distance 2.

Methods

[

signature(x = "rpa"): ...

[[

signature(x = "rpa"): ...

show

signature(x = "rpa"): ...

Author(s)

Leo Lahti <leo.lahti@tkk.fi>

References

Probabilistic Analysis of Probe Reliability in Differential Gene Expression Studies with Short Oligonucleotide Arrays. Lahti et al., TCBB/IEEE, to appear. See http://www.cis.hut.fi/projects/mi/software/RPA/

Examples

showClass("rpa")