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CoverageView

Coverage visualization package for R


Bioconductor version: Release (3.18)

This package provides a framework for the visualization of genome coverage profiles. It can be used for ChIP-seq experiments, but it can be also used for genome-wide nucleosome positioning experiments or other experiment types where it is important to have a framework in order to inspect how the coverage distributed across the genome

Author: Ernesto Lowy

Maintainer: Ernesto Lowy <ernestolowy at gmail.com>

Citation (from within R, enter citation("CoverageView")):

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("CoverageView")

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("CoverageView")
Easy visualization of the read coverage PDF R Script
Reference Manual PDF

Details

biocViews ChIPSeq, ImmunoOncology, RNASeq, Sequencing, Software, Technology, Visualization
Version 1.40.0
In Bioconductor since BioC 2.14 (R-3.1) (10 years)
License Artistic-2.0
Depends R (>= 2.10), methods, Rsamtools(>= 1.19.17), rtracklayer
Imports S4Vectors(>= 0.7.21), IRanges(>= 2.3.23), GenomicRanges, GenomicAlignments, parallel, tools
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Package Archives

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

Source Package CoverageView_1.40.0.tar.gz
Windows Binary
macOS Binary (x86_64) CoverageView_1.40.0.tgz
macOS Binary (arm64) CoverageView_1.40.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CoverageView
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CoverageView
Bioc Package Browser https://code.bioconductor.org/browse/CoverageView/
Package Short Url https://bioconductor.org/packages/CoverageView/
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