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Bioconductor - GenomicInteractions (development version)

GenomicInteractions

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

Utilities for handling genomic interaction data

Bioconductor version: Development (3.22)

Utilities for handling genomic interaction data such as ChIA-PET or Hi-C, annotating genomic features with interaction information, and producing plots and summary statistics.

Author: Harmston, N., Ing-Simmons, E., Perry, M., Baresic, A., Lenhard, B.

Maintainer: Liz Ing-Simmons <liz.ingsimmons at gmail.com>

Citation (from within R, enter citation("GenomicInteractions")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("GenomicInteractions")

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

Documentation

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

browseVignettes("GenomicInteractions")
Details biocViews DataImport, DataRepresentation, HiC, Infrastructure, Software Version 1.43.0 In Bioconductor since BioC 3.0 (R-3.1) (10.5 years) License GPL-3 Depends R (>= 3.5), InteractionSet Imports Rsamtools, rtracklayer, GenomicRanges(>= 1.29.6), IRanges, BiocGenerics(>= 0.15.3), data.table, stringr, GenomeInfoDb, ggplot2, grid, gridExtra, methods, igraph, S4Vectors(>= 0.13.13), dplyr, Gviz, Biobase, graphics, stats, utils, grDevices System Requirements URL https://github.com/ComputationalRegulatoryGenomicsICL/GenomicInteractions/ See More Package Archives

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

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