GSR: Simulator - ForwSim

The ForwSim package is not yet public.

Basic Package Attributes
AttributeValue
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
Homepagehttp://badri-populationgeneticsimulators.blogspot.com/ External Website Policy
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 verificationThe 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.
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataDiploid DNA Sequence
VariationsBiallelic Marker
Simulation MethodForward-time
Input
Data Type
File formatProgram Specific
Output
Data TypeGenotype or Sequence
Sequencing Reads
File FormatProgram Specific
Sample Type
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesConstant Size
Gene Flow
Spatiality
Life CycleDiscrete Generation Model
Mating SystemRandom Mating, Selfing
Fecundity
Natural Selection
DeterminantMulti-locus
ModelsDirectional Selection, Balancing Selection, Multi-locus models
RecombinationUniform
Mutation ModelsTwo-allele Mutation Model
Events Allowed
Other
InterfaceCommand-line, Script-based
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix
LanguageC or C++
LicenseGNU Public License
GSR Certification

Number of Primary Citations: 1

Number of Non-Primary Citations: 0

No example publication using ForwSim has been provided.

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