InteractionSet
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see InteractionSet.
Base Classes for Storing Genomic Interaction Data
Bioconductor version: 3.6
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("InteractionSet")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("InteractionSet")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | DataRepresentation, HiC, Infrastructure, Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (8 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 |
| System Requirements | C++11 |
| URL |
See More
| Suggests | testthat, knitr, rmarkdown, BiocStyle |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | diffHic, GenomicInteractions |
| Imports Me | HiCcompare |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | InteractionSet_1.6.0.tar.gz |
| Windows Binary | InteractionSet_1.6.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | InteractionSet_1.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/InteractionSet |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/InteractionSet |
| Package Short Url | https://bioconductor.org/packages/InteractionSet/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |