DOI: 10.18129/B9.bioc.InteractionSet    

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

Base Classes for Storing Genomic Interaction Data

Bioconductor version: Development (3.15)

Provides the GInteractions, InteractionSet and ContactMatrix objects and associated methods for storing and manipulating genomic interaction data from Hi-C and ChIA-PET experiments.

Author: Aaron Lun <infinite.monkeys.with.keyboards at>, Malcolm Perry <mgperry32 at>, Elizabeth Ing-Simmons <infinite.monkeys.with.keyboards at>

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at>

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


To install this package, start R (version "4.2") and enter:

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

# The following initializes usage of Bioc devel


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


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biocViews DataRepresentation, HiC, Infrastructure, Software
Version 1.23.0
In Bioconductor since BioC 3.3 (R-3.3) (5.5 years)
License GPL-3
Depends GenomicRanges, SummarizedExperiment
Imports methods, Matrix, Rcpp, BiocGenerics, S4Vectors(>= 0.27.12), IRanges, GenomeInfoDb
LinkingTo Rcpp
Suggests testthat, knitr, rmarkdown, BiocStyle
SystemRequirements C++11
Depends On Me diffHic, GenomicInteractions, MACPET, nullrangesData, sevenC
Imports Me CAGEfightR, ChIPpeakAnno, HiCcompare, HiCDCPlus, nullranges, trackViewer
Suggests Me CAGEWorkflow, plotgardener
Links To Me
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