Bioconductor version: Release (3.6)
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 gmail.com>, Liz Ing-Simmons <liz.ing-simmons12 at csc.mrc.ac.uk>
Citation (from within R,
enter citation("GenomicInteractions")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("GenomicInteractions")
HTML | R Script | chiapet_vignette.html |
HTML | R Script | GenomicInteractions-HiC |
Reference Manual | ||
Text | NEWS |
biocViews | DataImport, DataRepresentation, HiC, Infrastructure, Software |
Version | 1.12.0 |
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 |
LinkingTo | |
Suggests | knitr, BiocStyle, testthat |
SystemRequirements | |
Enhances | |
URL | https://github.com/ComputationalRegulatoryGenomicsICL/GenomicInteractions/ |
Depends On Me | |
Imports Me | |
Suggests Me | Chicago, ELMER |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | GenomicInteractions_1.12.0.tar.gz |
Windows Binary | GenomicInteractions_1.12.0.zip |
Mac OS X 10.11 (El Capitan) | GenomicInteractions_1.12.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/GenomicInteractions |
Package Short Url | http://bioconductor.org/packages/GenomicInteractions/ |
Package Downloads Report | Download Stats |
Documentation »
Bioconductor
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations: