CNViz

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

Copy Number Visualization

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DOI: 10.18129/B9.bioc.CNViz

Bioconductor version: Development (3.23)

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 "4.6") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CopyNumberVariation, DNASeq, Sequencing, Software, Visualization

Version 1.19.0

In Bioconductor since BioC 3.13 (R-4.1) (4.5 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

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Suggests rmarkdown, knitr

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Package Archives

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

Source Package CNViz_1.19.0.tar.gz

Windows Binary (x86_64)

macOS Binary (x86_64)

macOS Binary (arm64)

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/

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