CNViz
This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see CNViz.
Copy Number Visualization
Bioconductor version: 3.13
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("CNViz")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("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")| CNViz | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CopyNumberVariation, DNASeq, Sequencing, Software, Visualization |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3 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 |
| System Requirements | |
| URL |
See More
| Suggests | rmarkdown, knitr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CNViz_1.0.0.tar.gz |
| Windows Binary | CNViz_1.0.0.zip |
| macOS 10.13 (High Sierra) | CNViz_1.0.0.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 |
| Old Source Packages for BioC 3.13 | Source Archive |