runTesting: Run the tests on a DChIPRepResults object.

In DChIPRep: DChIPRep - Analysis of chromatin modification ChIP-Seq data with replication

Description

This function runs the testing on a DChIPRepResults object. It adds the FDR calculations and the result table to the DChIPRepResults object.

Usage

## S4 method for signature 'DChIPRepResults'
runTesting(object, lfcThreshold = 0.05,
  plotFDR = FALSE, ...)

Arguments

object	A DChIPRepResults object.
lfcThreshold	A non-negative threshold value, which determines the null hypothesis. The null hypothesis is H_0: |log2(FC)| > lfcThreshold
plotFDR	If set to TRUE a plot showing the estimated FDRs will be displayed
...	not used currently

Value

a modified DChIPRepResults object containing the testing results

See Also

resultsDChIPRep

Examples

data(testData)
dcr <- DChIPRepResults(testData)
dcr <- runTesting(dcr)

DChIPRep documentation built on April 29, 2020, 4:26 a.m.