Package: RSVSim 1.52.0

Christoph Bartenhagen

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

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.

Authors:Christoph Bartenhagen

RSVSim_1.52.0.tar.gz
RSVSim_1.52.0.zip(r-4.7)RSVSim_1.52.0.zip(r-4.6)RSVSim_1.52.0.zip(r-4.5)
RSVSim_1.52.0.tgz(r-4.6-any)RSVSim_1.52.0.tgz(r-4.5-any)
RSVSim_1.52.0.tar.gz(r-4.7-any)RSVSim_1.52.0.tar.gz(r-4.6-any)
RSVSim_1.52.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
RSVSim/json (API)

# Install 'RSVSim' in R:

install.packages('RSVSim', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

segDups - Segmental duplications
weightsMechanisms - Weights for SV formation mechanisms
weightsRepeats - Weights for repeat region bias

On BioConductor:RSVSim-1.53.0(bioc 3.24)RSVSim-1.52.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

sequencing

4.41 score 13 scripts 13 mentions 3 exports 45 dependencies

Last updated from:44b6005952 (on RELEASE_3_23). Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: no.

Target	Result	Time
bioc-checks	ERROR	256
linux-devel-x86_64	NOTE	393
source / vignettes	OK	355
linux-release-x86_64	NOTE	420
macos-release-arm64	NOTE	327
macos-oldrel-arm64	NOTE	219
windows-devel	NOTE	348
windows-release	NOTE	417
windows-oldrel	NOTE	370
wasm-release	OK	210

Exports:compareSV estimateSVSizes simulateSV

Dependencies:abind BH Biobase BiocGenerics BiocParallel Biostrings bitops cigarillo codetools cpp11 crayon DelayedArray deldir formatR futile.logger futile.options generics GenomicAlignments GenomicRanges hwriter interp IRanges jpeg lambda.r lattice latticeExtra MASS Matrix MatrixGenerics matrixStats png pwalign RColorBrewer Rcpp RcppEigen Rhtslib Rsamtools S4Arrays S4Vectors Seqinfo ShortRead snow SparseArray SummarizedExperiment XVector

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

Rendered fromvignette.Rnwusingutils::Sweaveon Jun 18 2026.

Last update: 2015-05-03
Started: 2013-11-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Compare the simulation with a set of SVs	compareSV compareSV,character,character-method compareSV,character,data.frame-method compareSV,data.frame,data.frame-method
Draw random structural variation sizes from a beta distribution	estimateSVSizes estimateSVSizes,numeric,missing,ANY,ANY,character-method estimateSVSizes,numeric,missing,ANY,ANY,missing-method estimateSVSizes,numeric,numeric,ANY,ANY,missing-method
Segmental duplications	segDups
Structural Variant Simulation	simulateSV simulateSV,ANY simulateSV,ANY-method
Weights for SV formation mechanisms	weightsMechanisms
Weights for repeat region bias	weightsRepeats