generate_binned_gi_list {HiCDCPlus} | R Documentation

## generate_binned_gi_list

### Description

Generates a valid uniformly binned gi_list instance.

### Usage

    generate_binned_gi_list(
      binsize,
      chrs = NULL,
      Dthreshold = 2e+06,
      gen = "Hsapiens",
      gen_ver = "hg19"
    )

### Arguments

`binsize` | Desired binsize in bp, e.g., 5000, 25000.
`chrs` | a subset of chromosomes' e.g., c('chr21','chr22'). Defaults to all chromosomes except "Y", and "M" for the specified `gen` and `gen_ver`.
`Dthreshold` | maximum distance (included) to check for significant interactions, defaults to 2e6 or maximum in the data; whichever is smaller.
`gen` | name of the species: e.g., default `'Hsapiens'`.
`gen_ver` | genomic assembly version: e.g., default `'hg19'`.

### Value

a valid, uniformly binned gi_list instance.

### Examples

    gi_list<-generate_binned_gi_list(1e6,chrs='chr22')

[Package HiCDCPlus version 1.0.0 Index]