HiTC

DOI: 10.18129/B9.bioc.HiTC    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see HiTC.

High Throughput Chromosome Conformation Capture analysis

Bioconductor version: 3.9

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 "3.6") and enter:

if (!requireNamespace("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 1.28.0
In Bioconductor since BioC 2.10 (R-2.15) (7.5 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
Links To Me
Build Report  

Package Archives

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

Source Package HiTC_1.28.0.tar.gz
Windows Binary HiTC_1.28.0.zip (64-bit only)
Mac OS X 10.11 (El Capitan) HiTC_1.28.0.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: