To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("InteractionSet")

In most cases, you don't need to download the package archive at all.

InteractionSet

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 (3.7)

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 <alun at wehi.edu.au>, Malcolm Perry <mgperry32 at gmail.com>, Liz Ing-Simmons <liz.ing-simmons12 at csc.mrc.ac.uk>

Maintainer: Aaron Lun <alun at wehi.edu.au>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("InteractionSet")

Documentation

HTML R Script Interacting with InteractionSet classes for genomic interaction data
PDF   Reference Manual
Text   NEWS

Details

biocViews DataRepresentation, HiC, Infrastructure, Software
Version 1.7.0
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License GPL-3
Depends R (>= 3.4), GenomicRanges(>= 1.29.6), SummarizedExperiment(>= 1.1.6)
Imports IRanges, S4Vectors(>= 0.13.13), GenomeInfoDb, BiocGenerics, methods, Matrix, Rcpp
LinkingTo Rcpp
Suggests testthat, knitr, rmarkdown, BiocStyle
SystemRequirements C++11
Enhances
URL
Depends On Me diffHic, GenomicInteractions
Imports Me HiCcompare
Suggests Me
Build Report  

Package Archives

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

Source Package InteractionSet_1.7.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) InteractionSet_1.7.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/InteractionSet
Package Short Url http://bioconductor.org/packages/InteractionSet/
Package Downloads Report Download Stats

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