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GSR: Simulator - pSBVB
| Attribute | Value |
|---|---|
| Title | pSBVB |
| Short Description | Polyploid sequence based virtual breeding (pSBVB) is a modification of SBVB software that allows simulating traits of an arbitrary genetic complexity in polyploids. |
| Long Description | pSBVB is a modification of SBVB software that simulates traits of an arbitrary genetic complexity in polyploids. pSBVB simulates complex traits and genotype data starting with a vcf file that contains the genotypes of founder individuals and follows a given pedigree. The main output is the genotypes of all individuals in the pedigree and/or molecular relationship matrices (GRM) using all sequence or a series of SNP lists, together with phenotype data. The program implements very efficient algorithms where only the recombination breakpoints for each individual are stored, therefore allowing the simulation of thousands of individuals very quickly. |
| Version | not available |
| Project Started | 2018 |
| Last Release | 6 years, 9 months ago |
| Homepage | https://github.com/lauzingaretti/pSBVB |
| Citations | Zingaretti ML, Monfort A, Pérez-Enciso M, pSBVB: A Versatile Simulation Tool To Evaluate Genomic Selection in Polyploid Species., G3 (Bethesda), Feb. 7, 2019 [ Abstract, cited in PMC ] |
| GSR Certification | Accessibility |
| Last evaluated | May 17, 2022 (1068 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 | Diploid DNA Sequence, Haploid DNA Sequence, |
| Variations | |
| Simulation Method | Gene dropping, |
| Input | |
| Data Type | |
| File format | |
| Output | |
| Data Type | |
| Sequencing Reads | |
| File Format | |
| Sample Type | |
| Phenotype | |
| Trait Type | Quantitative, |
| 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 | Command-line, |
| Development | |
| Tested Platforms | |
| Language | Other, |
| License | |
| GSR Certification | Documentation, Support, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 0
No example publication using pSBVB has been provided.
Please propose new citations if you are aware of publications that use this software.