HiContacts
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see HiContacts.
HiContacts: R interface to cool files
Bioconductor version: 3.16
HiContacts: R interface to (m)cool files and other Hi-C processed file formats. HiContacts provides a collection of tools to analyse and visualize Hi-C datasets. It can import data from pairs or (m)cool files.
Author: Jacques Serizay [aut, cre] 
Maintainer: Jacques Serizay <jacquesserizay at gmail.com>
citation("HiContacts")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HiContacts")
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("HiContacts")| Introduction to HiContacts | HTML | R Script |
| Reference Manual | ||
| LICENSE | Text |
Details
| biocViews | DNA3DStructure, DataImport, HiC, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (1.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.2) |
| Imports | HiContactsData, InteractionSet, GenomicInteractions, GenomicRanges, IRanges, GenomeInfoDb, S4Vectors, BiocGenerics, methods, rhdf5, Matrix, vroom, tibble, tidyr, dplyr, glue, stringr, reticulate, ggplot2, ggrastr, scales |
| System Requirements | |
| URL | https://github.com/js2264/HiContacts |
| Bug Reports | https://github.com/js2264/HiContacts/issues |
See More
| Suggests | cowplot, testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HiContacts_1.0.0.tar.gz |
| Windows Binary | HiContacts_1.0.0.zip (64-bit only) |
| macOS Binary (x86_64) | HiContacts_1.0.0.tgz |
| macOS Binary (arm64) | HiContacts_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/HiContacts |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HiContacts |
| Bioc Package Browser | https://code.bioconductor.org/browse/HiContacts/ |
| Package Short Url | https://bioconductor.org/packages/HiContacts/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.16 | Source Archive |