getContactFrequency: Get contact Frequency

In HiCociety: Inferring Chromatin Interaction Modules from 3C-Based Data

Get contact Frequency

Description

Retrieve contact frequency from .hic file using strawR package.

Usage

getContactFrequency(fname, chr, resol)

Arguments

fname	.hic data for any types of genome conformation capture data
chr	Chromosome number of network extraction
resol	DNA basepair Resolution. Default=10000

Details

Get Contact Frequncy from .hic file

Value

A data.frame containing three columns: x and y (genomic coordinate pairs), and counts (the contact frequency between them).

Author(s)

Sora Yoon, PhD

Examples

myhic=system.file('extdata', 'example.hic', package ='HiCocietyExample')
A = getContactFrequency(myhic,19,5000)
head(print(A))

HiCociety documentation built on Feb. 16, 2026, 5:10 p.m.