nucleosomeEnrichment.Vmat {VplotR} | R Documentation

## A function to compute nucleosome enrichment over a Vmat

### Description

A function to compute nucleosome enrichment over a Vmat

### Usage

    ## S3 method for class 'Vmat'
    nucleosomeEnrichment(x, background, plus1_nuc_only = FALSE, ...)

### Arguments

`x` | a computed Vmat. Should be un-normalized.
`background` | a background Vmat. Should be un-normalized.
`plus1_nuc_only` | Boolean, should compute nucleosome enrichment only for +1 nucleosome?
`...` | additional parameters

### Value

list

### Examples

    data(bam_test)
    data(ce11_proms)
    V <- plotVmat(
        bam_test,
        ce11_proms,
        normFun = '',
        return_Vmat = TRUE
    )
    V_bg <- plotVmat(
        bam_test,
        sampleGRanges(ce11_proms),
        normFun = '',
        return_Vmat = TRUE
    )
    n <- nucleosomeEnrichment(V, V_bg)
    n$fisher_test
    n$plot

[Package VplotR version 1.4.0 Index]