r3Cseq (version 1.18.0)

getBatchInteractions: calculate z-score, assign p-value and q-value for each interaction region for replicates data sets

Description

Calculate z-score, assign p-value and q-value to each interaction regions for replicates data sets

Usage

getBatchInteractions(object,method=c("union","intersection"),smoothing.parameter=0.1,fdr=0.05)

Arguments

object

r3Cseq object

method

character. The method for combining biological replicates for 3C-Seq analysis (default = "union")

smoothing.parameter

A level at which cubic smoothing spline for the spar (see vsmooth.spline) input parameter. Must be in (0.06,0.4] (default=0.1)

fdr

A level at which to control the FDR. Must be in (0,1] (default=0.05)

Value

The interaction regions show in the RangedData

See Also

getInteractions vsmooth.spline

Examples

 #See the vignette