PairComp-class: Class "PairComp" Represents the results of pairwise...

In simpleaffy: Very simple high level analysis of Affymetrix data

Description

Holds fold-change, ttest p-score and detection p-value calls(if used) between a pair of experimental factors.

Slots

means:

Object of class "matrix" Mean values for each of the experimental factors.

fc:

Object of class "numeric" Fold change between the means.

tt:

Object of class "numeric" P-score between the factors.

calls:

Object of class "matrix" Detection p-values for each probeset on each array.

group:

Object of class "character" The name of the factor that was compared.

members:

Object of class "character" A list containing the two levels compared between.

pData:

Object of class "pData" The phenoData for the members that were compared.

calculated.from:

Object of class "ExpressionSet" The original expression set that was being compared.

Methods

[

signature(x = "PairComp"): get the values for the specified gene(s).

[<-

signature(x = "PairComp"): not supported.

calls

signature(object = "PairComp"): the detection.p.values.

fc

signature(object = "PairComp"): the fold-changes.

group

signature(object = "PairComp"): the name of the group that was compared.

means

signature(object = "PairComp"): the means of the two experimental factors that were compared.

members

signature(object = "PairComp"): the members of that group that were compared.

pairwise.filter

signature(object = "PairComp"): Take a PairComp object and filter it to yield probesets that pass the specified criteria.

tt

signature(object = "PairComp"): the results of a ttest between groups.

pData

signature(object = "pData"): The phenoData from the members that were compared.

calculated.from

signature(object = "ExpressionSet"): The original expression set.

Author(s)

Crispin Miller

simpleaffy documentation built on Nov. 8, 2020, 11:09 p.m.