R: Manually set library depth correction factors

setDepthFactors {MPRAnalyze}

R Documentation

Manually set library depth correction factors

Description

Manually set library depth correction factors

Usage

setDepthFactors(obj, dnaDepth, rnaDepth)

Arguments

`obj`	the MpraObject
`dnaDepth`	library size factors for the DNA data, a numeric vector of length of the number of columns in the DNA data matrix
`rnaDepth`	library size factors for the RNA data, a numeric vector of length of the number of columns in the RNA data matrix

Value

the MpraObject with library depth factors

Examples

data <- simulateMPRA(tr = rep(2,10), da=NULL, nbatch=2, nbc=20)
obj <- MpraObject(dnaCounts = data$obs.dna, 
                  rnaCounts = data$obs.rna, 
                  colAnnot = data$annot)
## set constant depth factors (no depth correction)
obj <- setDepthFactors(obj, dnaDepth = rep(1, NCOL(data$obs.dna)),
                              rnaDepth = rep(1, NCOL(data$obs.rna)))

[Package MPRAnalyze version 1.6.0 Index]