An S4 class to store and handle null models for mixed linear model gene set analysis. — nullModelGSA-class • rvat

An S4 class to store and handle null models for mixed linear model gene set analysis.

An S4 class to store and handle null models for gene set analysis

# S4 method for class 'nullModelGSA'
listUnits(object)

# S4 method for class 'nullModelGSA'
length(x)

# S4 method for class 'nullModelGSA'
show(object)

Arguments

object: nullModelGSA-class object
x: nullModelGSA-class object

Slots

nullmodel: the null model
ID: ID field
results: the rvbResults the nullmodel was based on
units: units
covar: covariates included in the null model
method: which method was used, currently 'GENESIS' is implemented.

Generate a GSA null model

fitNullModelGSA: Generate a GSA null model, see buildCorMatrix() for details.

Getters

In the following code snippets, x is a nullModelGSA object

getCovar(x): Returns fixed effects
getResults(x): Returns input results
getNullModel(x): Returns the null model
listUnits(x): Returns the units included

See also

buildCorMatrix