To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("HiTC")
In most cases, you don't need to download the package archive at all.
HiTC
|
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see HiTC.
High Throughput Chromosome Conformation Capture analysis
Bioconductor version: 3.3
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 and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("HiTC")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HiTC")
| R Script | Hi-C data analysis using HiTC | |
| R Script | Introduction to HiTC package | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | HiC, HighThroughputSequencing, Sequencing, Software |
| Version | 1.16.0 |
| In Bioconductor since | BioC 2.10 (R-2.15) (4.5 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 |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | HiTC_1.16.0.tar.gz |
| Windows Binary | HiTC_1.16.0.zip |
| Mac OS X 10.9 (Mavericks) | HiTC_1.16.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/HiTC/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/HiTC/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
