PCpheno (version 1.34.0)

deResult-class: A class for representing the result of a densityEstimate test.

Description

A class for representing the result of a densityEstimate test.

Slots

Size:

Object of class "numeric" representing the size of the cellular organizational unit tested

Observed:

Return a "numeric" vector: the observed number of interactions between genes inducing a specific phenotype and each cellular organizational units

Expected:

Return a matrix: the expected number of interactions between genes inducing a specific phenotype and each cellular organizational units

Extends

Class "testResult", directly.

Methods

plot

Graphical representation of the test result

See Also

testResult,gtResult,densityEstimate, plot

Examples

## apply a densityEstimate test 
data( DudleyPhenoM)
data(ScISIC)

DudleyPhenoL <- apply(DudleyPhenoM,2,function(x) names(which(x==1)))
pH3 <- DudleyPhenoL[["pH3"]]

perm <- 20 
pH3Density <- densityEstimate(genename=pH3, interactome=ScISIC, perm=perm) 

## access results
pH3Density@Observed[1:5]

## use of the plot method
plot(pH3Density)