DOI: 10.18129/B9.bioc.GenomicInteractions    

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

R package for handling genomic interaction data

Bioconductor version: Development (3.7)

R package for handling Genomic interaction data, such as ChIA-PET/Hi-C, annotating genomic features with interaction information and producing various plots / statistics.

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

Maintainer: Malcolm Perry <mgperry32 at>, Liz Ing-Simmons < at>

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


To install this package, start R and enter:

## try http:// if https:// URLs are not supported


HTML R Script chiapet_vignette.html
HTML R Script GenomicInteractions-HiC
PDF   Reference Manual
Text   NEWS


biocViews DataImport, DataRepresentation, HiC, Infrastructure, Software
Version 1.13.2
In Bioconductor since BioC 3.0 (R-3.1) (3.5 years)
License GPL-3
Depends R (>= 3.3), 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
Suggests knitr, BiocStyle, testthat
Depends On Me
Imports Me
Suggests Me Chicago, ELMER
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Source Package GenomicInteractions_1.13.2.tar.gz
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Mac OS X 10.11 (El Capitan) GenomicInteractions_1.13.2.tgz
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