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GSR: Simulator - RSVSim
| Attribute | Value |
|---|---|
| Title | RSVSim |
| Short Description | an R/Bioconductor package for the simulation of structural variations |
| Long Description | RSVSim is a tool for the simulation of deletions, insertions, inversions, tandem duplications and translocations of various sizes in any genome available as FASTA-file or data package in R. The structural variations can be generated randomly, based on user-supplied genomic coordinates or associated to various kinds of repeats. The package further comprises functions to estimate the distribution of structural variation sizes from real datasets. |
| Version | 1.30.0 |
| Last Release | 10 years, 12 months ago |
| Homepage | https://bioconductor.org/packages/release/bioc/html/RSVSim.html |
| Citations | Bartenhagen C, Dugas M, RSVSim: an R/Bioconductor package for the simulation of structural variations., Bioinformatics, 07-01-2013 [ Abstract, cited in PMC ] |
| GSR Certification | ✔ Accessibility |
| Last evaluated | 06-10-2021 (1038 days ago) |
| Author verification | The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator. |
| Attribute Category | Attribute |
|---|---|
| Target | |
| Type of Simulated Data | |
| Variations | |
| Simulation Method | |
| Input | |
| Data Type | |
| File format | |
| Output | |
| Data Type | |
| Sequencing Reads | |
| File Format | |
| Sample Type | |
| Phenotype | |
| Trait Type | |
| Determinants | |
| Evolutionary Features | |
| Demographic | |
| Population Size Changes | |
| Gene Flow | |
| Spatiality | |
| Life Cycle | |
| Mating System | |
| Fecundity | |
| Natural Selection | |
| Determinant | |
| Models | |
| Recombination | |
| Mutation Models | |
| Events Allowed | |
| Other | |
| Interface | |
| Development | |
| Tested Platforms | |
| Language | |
| License | |
| GSR Certification | Accessibility, Documentation, Application, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 2
The following 2 publications are selected examples of applications that used RSVSim.
2023
Zhou X, Pan J, Wang Y, Lynch M, Long H, Zhang Y, De Novo Structural Variations of Escherichia coli Detected by Nanopore Long-Read Sequencing., Genome Biol Evol, 06-01-2023 [Abstract]
Jung YH, Wang HV, Ali S, Corces VG, Kremsky I, Characterization of a strain-specific CD-1 reference genome reveals potential inter- and intra-strain functional variability., BMC Genomics, 08-03-2023 [Abstract]