CNVrd2
This is thereleased version of CNVrd2; for the devel version, seeCNVrd2.
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.
Bioconductor version: Release (3.22)
CNVrd2 uses next-generation sequencing data to measure human gene copy number for multiple samples, indentify SNPs tagging copy number variants and detect copy number polymorphic genomic regions.
Author: Hoang Tan Nguyen, Tony R Merriman and Mik Black
Maintainer: Hoang Tan Nguyen <hoangtannguyenvn at gmail.com>
Citation (from within R, enter
citation("CNVrd2")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("CNVrd2")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CNVrd2")| A Markdown Vignette with knitr | R Script | |
| Reference Manual |
Details
| biocViews | Clustering.,CopyNumberVariation,Coverage,LinkageDisequilibrium,SNP,Sequencing,Software |
| Version | 1.48.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (12 years) |
| License | GPL-2 |
| Depends | R (>= 3.0.0), methods,VariantAnnotation, parallel,rjags,ggplot2,gridExtra |
| Imports | DNAcopy,IRanges,Rsamtools |
| System Requirements | |
| URL | https://github.com/hoangtn/CNVrd2 |
See More
| Suggests | knitr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | CNVrd2_1.48.0.tar.gz |
| Windows Binary (x86_64) | CNVrd2_1.48.0.zip |
| macOS Binary (x86_64) | CNVrd2_1.48.0.tgz |
| macOS Binary (arm64) | CNVrd2_1.48.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CNVrd2 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CNVrd2 |
| Bioc Package Browser | https://code.bioconductor.org/browse/CNVrd2/ |
| Package Short Url | https://bioconductor.org/packages/CNVrd2/ |
| Package Downloads Report | Download Stats |