R: Run differential variance analysis

runDiffVarAnalysis {MEAL}

R Documentation

Run differential variance analysis

Description

Run differential variance analysis. This analysis can only be run with categorical variables. This function relies on varFit from missMethyl package.

Usage

runDiffVarAnalysis(
  set,
  model,
  coefficient = NULL,
  resultSet = TRUE,
  betas = TRUE,
  warnings = TRUE,
  ...
)

Arguments

`set`	Matrix, `GenomicRatioSet`, `SummarizedExperiment` or `ExpressionSet`.
`model`	Model matrix or formula to get model matrix from `set`.
`coefficient`	Numeric with the coefficients used to make the groups. If NULL, all possible groups will be computed.
`resultSet`	Should results be encapsulated in a `resultSet`? (Default: TRUE)
`betas`	If `set` is a `GenomicRatioSet`, should beta values be used? (Default: TRUE)
`warnings`	Should warnings be displayed? (Default:TRUE)
`...`	Further arguments passed to `varFit`.

Value

MArrayLM or resultSet with the result of the differential variance analysis.

Examples

if (require(minfiData)){
 mvalues <- getM(MsetEx)[1:100, ]
 model <- model.matrix(~ Sample_Group, data = pData(MsetEx)) 
 res <- runDiffVarAnalysis(mvalues, model)
 res
}

[Package MEAL version 1.17.4 Index]