HiTC

This is the released version of HiTC; for the devel version, see HiTC.

High Throughput Chromosome Conformation Capture analysis

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DOI: 10.18129/B9.bioc.HiTC

Bioconductor version: Release (3.22)

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 "4.5") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews HiC, HighThroughputSequencing, Sequencing, Software

Version 1.54.0

In Bioconductor since BioC 2.10 (R-2.15) (13.5 years)

License Artistic-2.0

Depends R (>= 2.15.0), methods, IRanges, GenomicRanges

Imports Biostrings, graphics, grDevices, rtracklayer, RColorBrewer, Matrix, parallel, Seqinfo

System Requirements

URL

Suggests BiocStyle, HiCDataHumanIMR90, BSgenome.Hsapiens.UCSC.hg18

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me HiCDCPlus, HiCDataHumanIMR90, adjclust

Links To Me

Build Report Build Report

Package Archives

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

Source Package HiTC_1.54.0.tar.gz

Windows Binary (x86_64) HiTC_1.54.0.zip

macOS Binary (x86_64) HiTC_1.54.0.tgz

macOS Binary (arm64) HiTC_1.54.0.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