GSR: Simulator - SelSim

Basic Package Attributes
AttributeValue
Title SelSim
Short Description population genetic simulation (Not SelSim from Spencer & Coop 2004, which is currently unavailable)
Long Description With selsim, an evolving population of sequences is simulated according to a haploid Wright-Fisher model with discrete generations. This uses a Jukes-Cantor mutation model with a specified mutation rate. In each subsequent generation, the population is reconstituted by sampling sequences with replacement proportional to their frequency multiplied by their fitness. Mutations can be advantageous or deleterious and affect fitness in a multiplicative fashion (additive on a log-scale). Sequences are sampled at random time points after a period of burn-in.
Version 2.1
Last Release 2 years, 11 months ago
Homepagehttps://github.com/trvrb/selsim
Citations Bedford T, Cobey S, Pascual M, Strength and tempo of selection revealed in viral gene genealogies., BMC Evol Biol, 07-25-2011 [ Abstract, cited in PMC ]
GSR Certification

Accessibility
Documentation
Application
Support

Last evaluated04-27-2021 (91 days ago)
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 DataHaploid DNA Sequence,
VariationsSingle Nucleotide Variation,
Simulation MethodStandard Coalescent,
Input
Data Type
File format
Output
Data TypeGenotype or Sequence, Phenotypic Trait,
Sequencing Reads
File FormatOther,
Sample TypeRandom or Independent,
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesConstant Size,
Gene FlowContinent-Island Models,
Spatiality
Life Cycle
Mating SystemRandom Mating,
Fecundity
Natural Selection
DeterminantSingle-locus,
ModelsDirectional Selection, Balancing Selection,
RecombinationUniform, Varying Recombination Rates,
Mutation ModelsStepwise Mutation Model,
Events Allowed
Other
InterfaceCommand-line,
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix, Solaris,
LanguageC or C++,
LicenseGNU Public License,
GSR CertificationDocumentation, Support,

No example publication using SelSim has been provided.

Please propose new citations if you are aware of publications that use this software.


Propose changes to this simulator