HiTC
This is the development version of HiTC; for the stable release version, see HiTC.
High Throughput Chromosome Conformation Capture analysis
Bioconductor version: Development (3.20)
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("HiTC")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | R Script | |
Introduction to HiTC package | R Script | |
Reference Manual | ||
NEWS | Text |
Details
biocViews | HiC, HighThroughputSequencing, Sequencing, Software |
Version | 1.49.0 |
In Bioconductor since | BioC 2.10 (R-2.15) (12.5 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, 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_1.49.0.tar.gz |
Windows Binary | HiTC_1.49.0.zip |
macOS Binary (x86_64) | HiTC_1.49.0.tgz |
macOS Binary (arm64) | HiTC_1.49.0.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 |