ForwSim

Recently certified

Basic Package Attributes
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	9 years, 3 months 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.

Detailed Attributes
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

Propose changes to this simulator