CNViz

DOI: 10.18129/B9.bioc.CNViz    

Copy Number Visualization

Bioconductor version: Release (3.14)

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 "4.1") and enter:

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

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")

 

HTML R Script CNViz
PDF   Reference Manual
Text   NEWS

Details

biocViews CopyNumberVariation, DNASeq, Sequencing, Software, Visualization
Version 1.2.0
In Bioconductor since BioC 3.13 (R-4.1) (< 6 months)
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
LinkingTo
Suggests rmarkdown, knitr
SystemRequirements
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 CNViz_1.2.0.tar.gz
Windows Binary CNViz_1.2.0.zip
macOS 10.13 (High Sierra) CNViz_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CNViz
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CNViz
Package Short Url https://bioconductor.org/packages/CNViz/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.14 Source Archive

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