CopyNumberPlots
Create Copy-Number Plots using karyoploteR functionality
Bioconductor version: Release (3.20)
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>
Citation (from within R, enter
citation("CopyNumberPlots")):
Installation
To install this package, start R (version "4.4") 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")| CopyNumberPlots vignette | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CopyNumberVariation, Coverage, DNASeq, DataImport, OneChannel, Sequencing, Software, Visualization |
| Version | 1.22.0 |
| In Bioconductor since | BioC 3.9 (R-3.6) (5.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.6), karyoploteR |
| Imports | regioneR, IRanges, Rsamtools, SummarizedExperiment, VariantAnnotation, methods, stats, GenomeInfoDb, GenomicRanges, cn.mops, rhdf5, utils |
| System Requirements | |
| URL | https://github.com/bernatgel/CopyNumberPlots |
| Bug Reports | https://github.com/bernatgel/CopyNumberPlots/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, panelcn.mops, BSgenome.Hsapiens.UCSC.hg19.masked, DNAcopy, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | CNVfilteR, CNViz |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CopyNumberPlots_1.22.0.tar.gz |
| Windows Binary (x86_64) | CopyNumberPlots_1.22.0.zip |
| macOS Binary (x86_64) | CopyNumberPlots_1.22.0.tgz |
| macOS Binary (arm64) | CopyNumberPlots_1.22.0.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 |