FitHiC
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see FitHiC.
Confidence estimation for intra-chromosomal contact maps
Bioconductor version: 3.9
Fit-Hi-C is a tool for assigning statistical confidence estimates to intra-chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.
Author: Ferhat Ay [aut] (Python original, https://noble.gs.washington.edu/proj/fit-hi-c/), Timothy L. Bailey [aut], William S. Noble [aut], Ruyu Tan [aut, cre, trl] (R port)
Maintainer: Ruyu Tan <rut003 at ucsd.edu>
citation("FitHiC")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("FitHiC")
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("FitHiC")| Vignette Title | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DNA3DStructure, Software |
| Version | 1.10.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
| License | GPL (>= 2) |
| Depends | |
| Imports | data.table, fdrtool, grDevices, graphics, Rcpp, stats, utils |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | FitHiC_1.10.0.tar.gz |
| Windows Binary | FitHiC_1.10.0.zip |
| Mac OS X 10.11 (El Capitan) | FitHiC_1.10.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/FitHiC |
| Source Repository (Developer Access) | git clone [email protected]:packages/FitHiC |
| Bioc Package Browser | https://code.bioconductor.org/browse/FitHiC/ |
| Package Short Url | https://bioconductor.org/packages/FitHiC/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |