HiContacts
Analysing cool files in R with HiContacts
Bioconductor version: 3.24 · Package version: 1.15.0
HiContacts provides a collection of tools to analyse and visualize Hi-C datasets imported in R by HiCExperiment.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HiContacts")Details
| Maintainer | Jacques Serizay <jacquesserizay@gmail.com> |
| Author | Jacques Serizay [aut, cre] (ORCID: <https://orcid.org/0000-0002-4295-0624>) |
| License | MIT + file LICENSE |
| URL | https://github.com/js2264/HiContacts |
| Bug Reports | https://github.com/js2264/HiContacts/issues |
| Downloads rank | 533 |
| Source branch | devel |
| biocViews | DNA3DStructure, HiC, Software |
Download
Follow the installation instructions to use this package in your R session.
| Source package | HiContacts_1.15.0.tar.gz |
| Windows binary (x86_64) | HiContacts_1.15.0.zip |
| macOS binary (arm64) | HiContacts_1.15.0.tgz |
| macOS binary (x86_64) | HiContacts_1.15.0.tgz |
Dependencies
Depends: R (>= 4.2), HiCExperiment
Imports: InteractionSet, SummarizedExperiment, GenomicRanges, IRanges, GenomeInfoDb, S4Vectors, methods, BiocGenerics, BiocIO, BiocParallel, RSpectra, Matrix, tibble, tidyr, dplyr, readr, stringr, ggplot2, ggrastr, scales, stats, utils
Suggests: HiContactsData, rtracklayer, GenomicFeatures, Biostrings, BSgenome.Scerevisiae.UCSC.sacCer3, WGCNA, Rfast, terra, patchwork, testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown
Reverse dependencies
Suggests Me (3): HiCExperiment, HiCool, HiSpaR