getBatchInteractions: calculate z-score, assign p-value and q-value for each...

In supatt-lab/r3Cseq: Analysis of Chromosome Conformation Capture and Next-generation Sequencing (3C-seq)

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

Author(s)

S. Thongjuea

See Also

getInteractions vsmooth.spline

Examples

 #See the vignette	

supatt-lab/r3Cseq documentation built on May 6, 2019, 4:34 p.m.