load_hic: Load Hi-C dataset from file
In haizi-zh/hictools: Home-made handy tools for Hi-C

load_hic

R Documentation

Load Hi-C dataset from file

Description

This is the gateway function to load Hi-C files in a variety of formats: Juicer short, Juicer dump, .hic, BEDPE (aka genbed), etc. For each format, the argument specification may be slightly different. For details, refer to the following:

load_juicer_hic()
load_hic_genbed()

Usage

load_hic(
  file_path,
  format = c("auto", "juicer_short", "juicer_dump", "juicer_hic", "genbed", "cool"),
  genome,
  resol = NULL,
  chrom = NULL,
  sample = NULL,
  type = c("observed", "oe", "expected", "pearson", "cofrag"),
  norm = c("NONE", "KR", "VC", "VC_SQRT", "SCALE"),
  ...
)

haizi-zh/hictools documentation built on June 29, 2022, 4:32 a.m.