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HiTC

High Throughput Chromosome Conformation Capture analysis


Bioconductor version: Release (3.18)

The HiTC package was developed to explore high-throughput 'C' data such as 5C or Hi-C. Dedicated R classes as well as standard methods for quality controls, normalization, visualization, and further analysis are also provided.

Author: Nicolas Servant

Maintainer: Nicolas Servant <nicolas.servant at curie.fr>

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

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("HiTC")

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("HiTC")
Hi-C data analysis using HiTC PDF R Script
Introduction to HiTC package PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews HiC, HighThroughputSequencing, Sequencing, Software
Version 1.46.0
In Bioconductor since BioC 2.10 (R-2.15) (12 years)
License Artistic-2.0
Depends R (>= 2.15.0), methods, IRanges, GenomicRanges
Imports Biostrings, graphics, grDevices, rtracklayer, RColorBrewer, Matrix, parallel, GenomeInfoDb
System Requirements
URL
See More
Suggests BiocStyle, HiCDataHumanIMR90
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me HiCDataHumanIMR90, HiCDCPlus
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package HiTC_1.46.0.tar.gz
Windows Binary HiTC_1.46.0.zip
macOS Binary (x86_64) HiTC_1.46.0.tgz
macOS Binary (arm64) HiTC_1.46.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/HiTC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/HiTC
Bioc Package Browser https://code.bioconductor.org/browse/HiTC/
Package Short Url https://bioconductor.org/packages/HiTC/
Package Downloads Report Download Stats