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HiContacts
This is thereleased version of HiContacts; for the devel version, seeHiContacts.
Analysing cool files in R with HiContacts
Bioconductor version: Release (3.22)
HiContacts provides a collection of tools to analyse and visualize Hi-C datasets imported in R by HiCExperiment.
Author: Jacques Serizay [aut, cre]
ORCID: 0000-0002-4295-0624
Maintainer: Jacques Serizay <jacquesserizay at gmail.com>
Citation (from within R, enter
citation("HiContacts")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("HiContacts")For older versions of R, please refer to the appropriateBioconductor 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,HiC,Software |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (3 years) |
| License | MIT + fileLICENSE |
| 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 |
| System Requirements | |
| URL | https://github.com/js2264/HiContacts |
| Bug Reports | https://github.com/js2264/HiContacts/issues |
See More
| Suggests | HiContactsData,rtracklayer,GenomicFeatures,Biostrings,BSgenome.Scerevisiae.UCSC.sacCer3,WGCNA,Rfast,terra,patchwork,testthat (>= 3.0.0),BiocStyle,knitr,rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | OHCA |
| Suggests Me | HiCExperiment |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | HiContacts_1.12.0.tar.gz |
| Windows Binary (x86_64) | HiContacts_1.12.0.zip |
| macOS Binary (x86_64) | HiContacts_1.12.0.tgz |
| macOS Binary (arm64) | HiContacts_1.12.0.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 |