HiTC

DOI: 10.18129/B9.bioc.HiTC    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see HiTC.

High Throughput Chromosome Conformation Capture analysis

Bioconductor version: 3.15

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>

Installation

To install this package, start R (version "4.2") 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")

 

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

Details

biocViews	HiC, HighThroughputSequencing, Sequencing, Software
Version	1.40.0
In Bioconductor since	BioC 2.10 (R-2.15) (10.5 years)
License	Artistic-2.0
Depends	R (>= 2.15.0), methods, IRanges, GenomicRanges
Imports	Biostrings, graphics, grDevices, rtracklayer, RColorBrewer, Matrix, parallel, GenomeInfoDb
LinkingTo
Suggests	BiocStyle, HiCDataHumanIMR90
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	HiCDataHumanIMR90, HiCDCPlus
Links To Me
Build Report

Package Archives

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

Source Package	HiTC_1.40.0.tar.gz
Windows Binary	HiTC_1.40.0.zip
macOS Binary (x86_64)	HiTC_1.40.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/HiTC
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HiTC
Package Short Url	https://bioconductor.org/packages/HiTC/
Package Downloads Report	Download Stats