GSR: Simulator - forqs
Attribute | Value |
---|---|
Title | forqs |
Short Description | Forward-in-time simulation of Recombination, Quantitative Traits, and Selection |
Long Description | forqs is a forward-in-time population genetics simulation that tracks individual haplotype chunks as they recombine each generation. forqs also also models quantitative traits and selection on those traits. forqs is implemented as a command-line C++ program, using a modular design that gives the user great flexibility in creating custom simulations. It is freely available with a permissive BSD license. |
Version | by date |
Project Started | 2013 |
Last Release | 10 years, 1 month ago |
Homepage | https://bitbucket.org/dkessner/forqs |
Citations | Kessner D, Novembre J, forqs: forward-in-time simulation of recombination, quantitative traits and selection., Bioinformatics, 02-15-2014 [ Abstract, cited in PMC ] |
GSR Certification | ✔ Accessibility |
Last evaluated | 09-08-2017 (2409 days ago) |
Attribute Category | Attribute |
---|---|
Target | |
Type of Simulated Data | Diploid DNA Sequence, Haploid DNA Sequence, |
Variations | Biallelic Marker, Multiallelic Marker, Single Nucleotide Variation, |
Simulation Method | Forward-time, |
Input | |
Data Type | |
File format | Program Specific, |
Output | |
Data Type | Genotype or Sequence, Phenotypic Trait, Mutation, Linkage Disequilibrium, Fitness, |
Sequencing Reads | |
File Format | Program Specific, |
Sample Type | |
Phenotype | |
Trait Type | Binary or Qualitative, Quantitative, Multiple, |
Determinants | Single Genetic Marker, Multiple Genetic Markers, Sex-linked, Environmental Factors, |
Evolutionary Features | |
Demographic | |
Population Size Changes | Constant Size, Exponential Growth or Decline, Logistic Growth, Bottleneck, User Defined, |
Gene Flow | Stepping Stone Models, Island Models, Continent-Island Models, Admixed Population, Other, |
Spatiality | |
Life Cycle | Discrete Generation Model, |
Mating System | Random Mating, Other, |
Fecundity | Randomly Distributed, |
Natural Selection | |
Determinant | Single-locus, Multi-locus, Fitness of Offspring, Phenotypic Trait, Environmental Factors, |
Models | Directional Selection, Balancing Selection, Multi-locus models, Epistasis, Phenotype Threshold, |
Recombination | Uniform, Varying Recombination Rates, |
Mutation Models | Two-allele Mutation Model, k-Allele Model, |
Events Allowed | Population Merge and Split, Varying Demographic Features, Population Events, |
Other | Polygenic background, |
Interface | Command-line, |
Development | |
Tested Platforms | Windows, Mac OS X, Linux and Unix, |
Language | C or C++, |
License | BSD, |
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 forqs.
2023
Drury AL, Gout JF, Dapper AL, Modeling Recombination Rate as a Quantitative Trait Reveals New Insight into Selection in Humans., Genome Biol Evol, 08-01-2023 [Abstract]
2021
Frayer ME, Payseur BA, Demographic history shapes genomic ancestry in hybrid zones., Ecol Evol, 07-05-2021 [Abstract]