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CNViz

This is the development version of CNViz; for the stable release version, see CNViz.

Copy Number Visualization

Bioconductor version: Development (3.18)

CNViz takes probe, gene, and segment-level log2 copy number ratios and launches a Shiny app to visualize your sample's copy number profile. You can also integrate loss of heterozygosity (LOH) and single nucleotide variant (SNV) data.

Author: Rebecca Greenblatt [aut, cre]

Maintainer: Rebecca Greenblatt <rebecca.greenblatt at gmail.com>

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

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("CNViz")

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("CNViz")
CNViz HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews CopyNumberVariation, DNASeq, Sequencing, Software, Visualization
Version 1.9.0
In Bioconductor since BioC 3.13 (R-4.1) (2 years)
License Artistic-2.0
Depends R (>= 4.0), shiny (>= 1.5.0)
Imports dplyr, stats, utils, grDevices, plotly, karyoploteR, CopyNumberPlots, GenomicRanges, magrittr, DT, scales, graphics
Linking To
Suggests rmarkdown, knitr
System Requirements
Enhances
URL
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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 CNViz_1.9.0.tar.gz
Windows Binary CNViz_1.9.0.zip
macOS Binary (x86_64) CNViz_1.9.0.tgz
macOS Binary (arm64) CNViz_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CNViz
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CNViz
Bioc Package Browser https://code.bioconductor.org/browse/CNViz/
Package Short Url https://bioconductor.org/packages/CNViz/
Package Downloads Report Download Stats