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RSVSim

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


Bioconductor version: Release (3.18)

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>

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

Installation

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


if (!require("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")
RSVSim: an R/Bioconductor package for the simulation of structural variations PDF R Script
Reference Manual PDF

Details

biocViews Sequencing, Software
Version 1.42.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License LGPL-3
Depends R (>= 3.5.0), Biostrings, GenomicRanges
Imports methods, IRanges, ShortRead
System Requirements
URL
See More
Suggests BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg19.masked, MASS, rtracklayer
Linking To
Enhances
Depends On Me
Imports Me
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Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package RSVSim_1.42.0.tar.gz
Windows Binary RSVSim_1.42.0.zip
macOS Binary (x86_64) RSVSim_1.42.0.tgz
macOS Binary (arm64) RSVSim_1.42.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/RSVSim
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RSVSim
Bioc Package Browser https://code.bioconductor.org/browse/RSVSim/
Package Short Url https://bioconductor.org/packages/RSVSim/
Package Downloads Report Download Stats