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GSR: Simulator - RECOAL
| Attribute | Value |
|---|---|
| Title | RECOAL |
| Short Description | Simulates new haplotype data from a reference population of haplotypes. |
| Long Description | RECOAL simulates new haplotype data from a reference population of haplotypes. A coalescent genealogy for the reference haplotype data is sampled from the appropriate posterior probability distribution, then a coalescent genealogy is simulated which extends the sampled genealogy to include new haplotype data. The new haplotype data will therefore contain both some of the existing polymorphic sites and new polymorphisms added based on the structure of the simulated coalescent genealogy. |
| Project Started | 2012 |
| Last Release | 12 years, 2 months ago |
| Homepage | https://github.com/cjkang/RECOAL |
| Citations | Kang CJ, Marjoram P, Exact coalescent simulation of new haplotype data from existing reference haplotypes., Bioinformatics, 03-15-2012 [ Abstract, cited in PMC ] |
| GSR Certification | ✔ Accessibility |
| Last evaluated | 03-12-2020 (1493 days ago) |
| Attribute Category | Attribute |
|---|---|
| Target | |
| Type of Simulated Data | Haploid DNA Sequence, |
| Variations | Biallelic Marker, Single Nucleotide Variation, |
| Simulation Method | Standard Coalescent, Resample Existing Data, |
| Input | |
| Data Type | Empirical (Simulated, or obtained from hapmap or 1000 genomes), |
| File format | MS, |
| Output | |
| Data Type | Genotype or Sequence, |
| Sequencing Reads | |
| File Format | MS, |
| Sample Type | Random or Independent, |
| Phenotype | |
| Trait Type | |
| Determinants | |
| Evolutionary Features | |
| Demographic | |
| Population Size Changes | Constant Size, Exponential Growth or Decline, |
| Gene Flow | |
| Spatiality | |
| Life Cycle | |
| Mating System | |
| Fecundity | |
| Natural Selection | |
| Determinant | |
| Models | |
| Recombination | Uniform, Varying Recombination Rates, |
| Mutation Models | Two-allele Mutation Model, Markov DNA Evolution Models, |
| Events Allowed | |
| Other | |
| Interface | Command-line, |
| Development | |
| Tested Platforms | Mac OS X, Linux and Unix, |
| Language | C or C++, |
| License | |
| GSR Certification | Accessibility, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 0
No example publication using RECOAL has been provided.
Please propose new citations if you are aware of publications that use this software.