RSVSim

This package is for version 3.10 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: 3.10

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 "3.6") 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 1.26.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License LGPL-3
Depends R (>= 3.0.0), 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
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package RSVSim_1.26.0.tar.gz
Windows Binary RSVSim_1.26.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) RSVSim_1.26.0.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
Old Source Packages for BioC 3.10 Source Archive