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

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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
Date of publication
None
Maintainer
Christoph Bartenhagen <christoph.bartenhagen@uni-muenster.de>
License
LGPL-3
Version
1.14.0

View on Bioconductor

Man pages

compareSVs
Compare the simulation with a set of SVs
estimateSVSizes
Draw random structural variation sizes from a beta...
segmentalDuplications
Segmental duplications
simulateSV
Structural Variant Simulation
weightsMechanisms
Weights for SV formation mechanisms
weightsRepeats
Weights for repeat region bias

Files in this package

RSVSim/DESCRIPTION
RSVSim/NAMESPACE
RSVSim/R
RSVSim/R/AllGenerics.R
RSVSim/R/Main.R
RSVSim/R/Misc.R
RSVSim/R/Rearrangement.R
RSVSim/R/Simulation.R
RSVSim/build
RSVSim/build/vignette.rds
RSVSim/data
RSVSim/data/segmentalDuplications.RData
RSVSim/data/weightsMechanisms.RData
RSVSim/data/weightsRepeats.RData
RSVSim/inst
RSVSim/inst/doc
RSVSim/inst/doc/vignette.R
RSVSim/inst/doc/vignette.Rnw
RSVSim/inst/doc/vignette.pdf
RSVSim/man
RSVSim/man/compareSVs.Rd
RSVSim/man/estimateSVSizes.Rd
RSVSim/man/segmentalDuplications.Rd
RSVSim/man/simulateSV.Rd
RSVSim/man/weightsMechanisms.Rd
RSVSim/man/weightsRepeats.Rd
RSVSim/vignettes
RSVSim/vignettes/vignette.Rnw