GSR: Simulator - BottleSim

Basic Package Attributes
AttributeValue
Title BottleSim
Short Description a simulation program for changes in genetic diversity during the process of population bottlenecks
Long Description Population bottlenecks reduce genetic diversity and thus cause great concern in conservation biology. Previous theoretical studies often assume discrete generations in projecting declines in genetic diversity caused by bottlenecks. This assumption creates complexities when applying the models to long-lived species with overlapping generations. BottleSim is a program for simulating bottlenecks to estimate the impact on genetic diversity; the novelties include an overlapping-generation model, a wide range of reproductive systems, and flexible population size settings. With these features, BottleSim will be a useful tool for estimating the genetic consequences of bottlenecks, evaluating conservation plans, and performing power analysis.
Keywords population genetics, bottleneck, microsatellite, genetic diversity
Version 2.6
Project Started 2003
Last Release 17 years, 4 months ago
Homepagehttps://github.com/chihhorngkuo/BottleSim
Citations Kuo CH, Janzen FJ, bottlesim: a bottleneck simulation program for long-lived species with overlapping generations, Molecular Ecology Notes, 10-09-2003 [ Abstract ]
GSR Certification

Accessibility
Documentation
Application
Support

Last evaluated03-23-2018 (938 days ago)
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataGenotype at Genetic Markers,
VariationsBiallelic Marker, Multiallelic Marker, Microsatellite,
Simulation MethodForward-time, Resample Existing Data,
Input
Data TypeOther,
File formatProgram Specific,
Output
Data TypeGenotype or Sequence, Diversity Measures,
Sequencing Reads
File FormatGenepop, Program Specific,
Sample Type
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesConstant Size, Exponential Growth or Decline, Logistic Growth, Bottleneck, Carrying Capacity, User Defined,
Gene Flow
Spatiality
Life CycleOverlapping Generation,
Mating SystemRandom Mating, Selfing, Age- or Stage-Specific,
FecundityRandomly Distributed,
Natural Selection
Determinant
Models
Recombination
Mutation Models
Events Allowed
Other
InterfaceCommand-line,
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix,
LanguageC or C++,
LicenseGNU Public License,
GSR CertificationAccessibility, Documentation, Support,

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