CopyNumberPlots

DOI: 10.18129/B9.bioc.CopyNumberPlots  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see CopyNumberPlots.

Create Copy-Number Plots using karyoploteR functionality

Bioconductor version: 3.17

CopyNumberPlots have a set of functions extending karyoploteRs functionality to create beautiful, customizable and flexible plots of copy-number related data.

Author: Bernat Gel <bgel at igtp.cat> and Miriam Magallon <mmagallon at igtp.cat>

Maintainer: Bernat Gel <bgel at igtp.cat>

Installation

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

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

BiocManager::install("CopyNumberPlots")

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("CopyNumberPlots")

 

HTML	R Script	CopyNumberPlots vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	CopyNumberVariation, Coverage, DNASeq, DataImport, OneChannel, Sequencing, Software, Visualization
Version	1.16.0
In Bioconductor since	BioC 3.9 (R-3.6) (4.5 years)
License	Artistic-2.0
Depends	R (>= 3.6), karyoploteR
Imports	regioneR, IRanges, Rsamtools, SummarizedExperiment, VariantAnnotation, methods, stats, GenomeInfoDb, GenomicRanges, cn.mops, rhdf5, utils
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, panelcn.mops, BSgenome.Hsapiens.UCSC.hg19.masked, DNAcopy, testthat
SystemRequirements
Enhances
URL	https://github.com/bernatgel/CopyNumberPlots
BugReports	https://github.com/bernatgel/CopyNumberPlots/issues
Depends On Me
Imports Me	CNVfilteR, CNViz
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	CopyNumberPlots_1.16.0.tar.gz
Windows Binary	CopyNumberPlots_1.16.0.zip (64-bit only)
macOS Binary (x86_64)	CopyNumberPlots_1.16.0.tgz
macOS Binary (arm64)	CopyNumberPlots_1.16.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/CopyNumberPlots
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/CopyNumberPlots
Bioc Package Browser	https://code.bioconductor.org/browse/CopyNumberPlots/
Package Short Url	https://bioconductor.org/packages/CopyNumberPlots/
Package Downloads Report	Download Stats