define_feature {ChromSCape} | R Documentation

## Define the features on which reads will be counted

### Description

Define the features on which reads will be counted

### Usage

    define_feature(ref = c("hg38","mm10")[1],
     peak_file = NULL,
     bin_width  = NULL,
     genebody = FALSE,
     extendPromoter = 2500)

### Arguments

`ref` | Reference genome
`peak_file` | A bed file if counting on peaks
`bin_width` | A number of bins if divinding genome into fixed width bins
`genebody` | A logical indicating if feature should be counted in genebodies and promoter.
`extendPromoter` | Extension length before TSS (2500).

### Value

A GRanges object

### Examples

    gr_bins = define_feature("hg38", bin_width = 50000)
    gr_genes = define_feature("hg38", genebody = TRUE, extendPromoter = 5000)

[Package ChromSCape version 1.2.62 Index]