RSVSim

DOI: 10.18129/B9.bioc.RSVSim    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see RSVSim.

RSVSim: an R/Bioconductor package for the simulation of structural variations

Bioconductor version: 3.9

RSVSim is a package for the simulation of deletions, insertions, inversion, tandem-duplications and translocations of various sizes in any genome available as FASTA-file or BSgenome data package. SV breakpoints can be placed uniformly accross the whole genome, with a bias towards repeat regions and regions of high homology (for hg19) or at user-supplied coordinates.

Author: Christoph Bartenhagen

Maintainer: Christoph Bartenhagen <c.bartenhagen at uni-koeln.de>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("RSVSim")

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("RSVSim")

 

PDF	R Script	RSVSim: an R/Bioconductor package for the simulation of structural variations
PDF		Reference Manual

Details

biocViews	Sequencing, Software
Version	1.24.0
In Bioconductor since	BioC 2.12 (R-3.0) (6.5 years)
License	LGPL-3
Depends	R (>= 3.0.0), Biostrings, GenomicRanges
Imports	methods, IRanges, ShortRead
LinkingTo
Suggests	BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg19.masked, MASS, rtracklayer
SystemRequirements
Enhances
URL
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	RSVSim_1.24.0.tar.gz
Windows Binary	RSVSim_1.24.0.zip
Mac OS X 10.11 (El Capitan)	RSVSim_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RSVSim
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RSVSim
Package Short Url	https://bioconductor.org/packages/RSVSim/
Package Downloads Report	Download Stats