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breakpointR

This is the development version of breakpointR; for the stable release version, see breakpointR.

Find breakpoints in Strand-seq data

Bioconductor version: Development (3.18)

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>

Citation (from within R, enter citation("breakpointR")):

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Coverage, DNASeq, Sequencing, SingleCell, Software
Version 1.19.0
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
Linking To
Suggests knitr, BiocStyle, testthat
System Requirements
Enhances
URL https://github.com/daewoooo/BreakPointR
See More
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_1.19.0.tar.gz
Windows Binary breakpointR_1.19.0.zip
macOS Binary (x86_64) breakpointR_1.19.0.tgz
macOS Binary (arm64) breakpointR_1.19.0.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