prepareBindingSitesList {ATACseqQC} | R Documentation

## helper function for preparing the binding list

### Description

helper function for preparing the binding list

### Usage

    prepareBindingSitesList(pfms, genome, seqlev = paste0("chr", c(1:22, "X",
      "Y")), expSiteNum = 5000)

### Arguments

`pfms` | A list of Position frequency Matrix represented as a numeric matrix with row names A, C, G and T.
`genome` | An object of BSgenome.
`seqlev` | A vector of characters indicates the sequence levels.
`expSiteNum` | numeric(1). Expect number of predicted binding sites. if predicted binding sites is more than this number, top expSiteNum binding sites will be used.

### Examples

    library(MotifDb)
    motifs <- query(MotifDb, c("Hsapiens"))
    motifs <- as.list(motifs)
    library(BSgenome.Hsapiens.UCSC.hg19)
    #bindingSitesList <- prepareBindingSitesList(motifs, genome=Hsapiens)

[Package ATACseqQC version 1.4.3 Index]