DOI: 10.18129/B9.bioc.InteractionSet  

Base Classes for Storing Genomic Interaction Data

Bioconductor version: Release (3.17)

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 [aut, cre], Malcolm Perry [aut], Elizabeth Ing-Simmons [aut]

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

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


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biocViews DataRepresentation, HiC, Infrastructure, Software
Version 1.28.1
In Bioconductor since BioC 3.3 (R-3.3) (7.5 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, HiCDOC, nullrangesData, sevenC
Imports Me CAGEfightR, ChIPpeakAnno, EDIRquery, extraChIPs, HiCcompare, HiCDCPlus, HiCExperiment, HiContacts, HiCool, mariner, nullranges, trackViewer
Suggests Me CAGEWorkflow, plotgardener, updateObject
Links To Me
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Source Package InteractionSet_1.28.1.tar.gz
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