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FitHiC

Confidence estimation for intra-chromosomal contact maps


Bioconductor version: Release (3.18)

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 (from within R, enter citation("FitHiC")):

Installation

To install this package, start R (version "4.3") 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 PDF
NEWS Text

Details

biocViews DNA3DStructure, Software
Version 1.28.0
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_1.28.0.tar.gz
Windows Binary FitHiC_1.28.0.zip
macOS Binary (x86_64) FitHiC_1.28.0.tgz
macOS Binary (arm64) FitHiC_1.28.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/FitHiC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/FitHiC
Bioc Package Browser https://code.bioconductor.org/browse/FitHiC/
Package Short Url https://bioconductor.org/packages/FitHiC/
Package Downloads Report Download Stats