breakpointR
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see breakpointR.
Find breakpoints in Strand-seq data
Bioconductor version: 3.9
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 "3.6") 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")| How to use breakpointR | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Coverage, DNASeq, Sequencing, SingleCell, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.8 (R-3.5) (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 |
| System Requirements | |
| URL | https://github.com/daewoooo/BreakPointR |
See More
| Suggests | knitr, BiocStyle, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | breakpointR_1.2.0.tar.gz |
| Windows Binary | breakpointR_1.2.0.zip |
| Mac OS X 10.11 (El Capitan) | breakpointR_1.2.0.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 |
| Old Source Packages for BioC 3.9 | Source Archive |