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This is the development version of GOTHiC; for the stable release version, see GOTHiC.

Binomial test for Hi-C data analysis

Bioconductor version: Development (3.19)

This is a Hi-C analysis package using a cumulative binomial test to detect interactions between distal genomic loci that have significantly more reads than expected by chance in Hi-C experiments. It takes mapped paired NGS reads as input and gives back the list of significant interactions for a given bin size in the genome.

Author: Borbala Mifsud and Robert Sugar

Maintainer: Borbala Mifsud <b.mifsud at qmul.ac.uk>

Citation (from within R, enter citation("GOTHiC")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

package_vignettes.pdf PDF R Script
Reference Manual PDF


biocViews Epigenetics, HiC, ImmunoOncology, Preprocessing, Sequencing, Software
Version 1.39.0
In Bioconductor since BioC 2.14 (R-3.1) (10 years)
License GPL-3
Depends R (>= 3.5.0), methods, GenomicRanges, Biostrings, BSgenome, data.table
Imports BiocGenerics, S4Vectors(>= 0.9.38), IRanges, Rsamtools, ShortRead, rtracklayer, ggplot2, BiocManager, grDevices, utils, stats, GenomeInfoDb
System Requirements
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Suggests HiCDataLymphoblast
Linking To
Enhances parallel
Depends On Me
Imports Me OHCA
Suggests Me
Links To Me
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package GOTHiC_1.39.0.tar.gz
Windows Binary GOTHiC_1.39.0.zip
macOS Binary (x86_64) GOTHiC_1.39.0.tgz
macOS Binary (arm64) GOTHiC_1.39.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GOTHiC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GOTHiC
Bioc Package Browser https://code.bioconductor.org/browse/GOTHiC/
Package Short Url https://bioconductor.org/packages/GOTHiC/
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