GSR: Simulator - ForwSim
The ForwSim package is not yet public.
Attribute | Value |
---|---|
Title | ForwSim |
Short Description | The program given below is based on the algorithm described in Padhukasahasram et al. 2008 to simulate genetic drift in a standard Wright-Fisher process. |
Long Description | Diploid organisms are represented as pairs of chromosome arrays that store the locations of mutations. The user specifies a probability of selfing. Populations of constant size reproduce with non-overlapping generations. Mutations occur at a Poisson-distributed rate and insert new integers into chromosome arrays, which may undergo recombination. The number of sites is finite, but mutations occur only at non-polymorphic sites. Locations which are no longer polymorphic are removed. If using natural selection, the evolution of selected and neutral sites is carried out separately, with selected sites considered first. |
Project Started | 2009 |
Last Release | 15 years ago |
Homepage | http://badri-populationgeneticsimulators.blogspot.com/ |
Citations | Padhukasahasram B, Marjoram P, Wall JD, Bustamante CD, Nordborg M, Exploring population genetic models with recombination using efficient forward-time simulations., Genetics, April 1, 2008 [ Abstract, cited in PMC ] |
GSR Certification | This simulator has not yet been evaluated for GSR Certification. Learn more about or request GSR Certification. |
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 |
Variations | Biallelic Marker |
Simulation Method | Forward-time |
Input | |
Data Type | |
File format | Program Specific |
Output | |
Data Type | Genotype or Sequence |
Sequencing Reads | |
File Format | Program Specific |
Sample Type | |
Phenotype | |
Trait Type | |
Determinants | |
Evolutionary Features | |
Demographic | |
Population Size Changes | Constant Size |
Gene Flow | |
Spatiality | |
Life Cycle | Discrete Generation Model |
Mating System | Random Mating, Selfing |
Fecundity | |
Natural Selection | |
Determinant | Multi-locus |
Models | Directional Selection, Balancing Selection, Multi-locus models |
Recombination | Uniform |
Mutation Models | Two-allele Mutation Model |
Events Allowed | |
Other | |
Interface | Command-line, Script-based |
Development | |
Tested Platforms | Windows, Mac OS X, Linux and Unix |
Language | C or C++ |
License | GNU Public License |
GSR Certification |
Number of Primary Citations: 1
Number of Non-Primary Citations: 0
No example publication using ForwSim has been provided.
Please propose new citations if you are aware of publications that use this software.