HiTC
High Throughput Chromosome Conformation Capture analysis
Bioconductor version: Release (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 (from within R, enter
citation("HiTC")):
Installation
To install this package, start R (version "4.4") 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 | R Script | |
| Introduction to HiTC package | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | HiC, HighThroughputSequencing, Sequencing, Software |
| Version | 1.50.0 |
| 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_1.50.0.tar.gz |
| Windows Binary (x86_64) | HiTC_1.50.0.zip (64-bit only) |
| macOS Binary (x86_64) | HiTC_1.50.0.tgz |
| macOS Binary (arm64) | HiTC_1.50.0.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 |