breakpointR

DOI: 10.18129/B9.bioc.breakpointR  

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

Find breakpoints in Strand-seq data

Bioconductor version: 3.17

This package implements functions for finding breakpoints, plotting and export of Strand-seq data.

Author: David Porubsky, Ashley Sanders, Aaron Taudt

Maintainer: David Porubsky <david.porubsky at gmail.com>

Installation

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

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

BiocManager::install("breakpointR")

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("breakpointR")

 

PDF	R Script	How to use breakpointR
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Coverage, DNASeq, Sequencing, SingleCell, Software
Version	1.18.0
In Bioconductor since	BioC 3.8 (R-3.5) (5 years)
License	file LICENSE
Depends	R (>= 3.5), GenomicRanges, cowplot, breakpointRdata
Imports	methods, utils, grDevices, stats, S4Vectors, GenomeInfoDb(>= 1.12.3), IRanges, Rsamtools, GenomicAlignments, ggplot2, BiocGenerics, gtools, doParallel, foreach
LinkingTo
Suggests	knitr, BiocStyle, testthat
SystemRequirements
Enhances
URL	https://github.com/daewoooo/BreakPointR
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	breakpointR_1.18.0.tar.gz
Windows Binary	breakpointR_1.18.0.zip
macOS Binary (x86_64)	breakpointR_1.18.0.tgz
macOS Binary (arm64)	breakpointR_1.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/breakpointR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/breakpointR
Bioc Package Browser	https://code.bioconductor.org/browse/breakpointR/
Package Short Url	https://bioconductor.org/packages/breakpointR/
Package Downloads Report	Download Stats