rGenomeTracks

DOI: 10.18129/B9.bioc.rGenomeTracks    

Integerated visualization of epigenomic data

Bioconductor version: Release (3.14)

rGenomeTracks package leverages the power of pyGenomeTracks software with the interactivity of R. pyGenomeTracks is a python software that offers robust method for visualizing epigenetic data files like narrowPeak, Hic matrix, TADs and arcs, however though, here is no way currently to use it within R interactive session. rGenomeTracks wrapped the whole functionality of pyGenomeTracks with additional utilites to make to more pleasant for R users.

Author: Omar Elashkar [aut, cre]

Maintainer: Omar Elashkar <omar.i.elashkar at gmail.com>

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("rGenomeTracks")

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("rGenomeTracks")

 

HTML	R Script	rGenomeTracks
PDF		Reference Manual

Details

biocViews	HiC, Software, Visualization
Version	1.0.0
In Bioconductor since	BioC 3.14 (R-4.1) (< 6 months)
License	GPL-3
Depends	R (>= 4.1.0)
Imports	imager, reticulate, methods, rGenomeTracksData
LinkingTo
Suggests	rmarkdown, knitr, testthat (>= 3.0.0)
SystemRequirements	pyGenomeTracks (prefered to use install_pyGenomeTracks())
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	rGenomeTracks_1.0.0.tar.gz
Windows Binary	rGenomeTracks_1.0.0.zip
macOS 10.13 (High Sierra)	rGenomeTracks_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rGenomeTracks
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rGenomeTracks
Package Short Url	https://bioconductor.org/packages/rGenomeTracks/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.14	Source Archive