Basic Package AttributesAttribute | Value |
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Title | SMARTPOP |
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Short Description | Simulating Mating Alliance as a Reproductive Tactic for Populations |
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Long Description | SMARTPOP is a fast and flexible forward-in-time simulator for population genetics. Specially developed for speed, it is available in a serial and a parallel versions.
Developed for anthropological inference on human populations and eco-anthropological questions, SMARTPOP simulates individuals with sequences of sex-linked DNA (mitochondria, X and Y chromosomes) and autosomes. Studies of social dynamics are enabled using SMARTPOP flexible demographic model and social rules of mating. |
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Version | 1.0 |
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Homepage | http://smartpop.sourceforge.net/ |
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Citations |
Guillot EG, Cox MP, SMARTPOP: inferring the impact of social dynamics on genetic diversity through high speed simulations., BMC Bioinformatics, June 9, 2014
[Abstract, cited in
PMC
]
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GSR Certification |
This simulator has not yet been evaluated for GSR Certification. Learn more about or request GSR Certification.
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Detailed AttributesAttribute Category | Attribute | Target | |
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Type of Simulated Data | Diploid DNA Sequence,
Haploid DNA Sequence,
Sex Chromosomes,
Mitochondrial DNA,
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Variations | Single Nucleotide Variation,
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Simulation Method | Forward-time,
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Input | |
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Data Type | Saved simulation,
Other,
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File format | Program Specific,
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Output | |
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Data Type | Genotype or Sequence,
Diversity Measures,
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Sequencing Reads | Other,
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File Format | Arlequin,
Fasta or Fastq,
Program Specific,
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Sample Type | Random or Independent,
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Phenotype | |
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Trait Type | |
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Determinants | |
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Evolutionary Features | |
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Demographic | |
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Population Size Changes | Constant Size,
Exponential Growth or Decline,
Logistic Growth,
Bottleneck,
Carrying Capacity,
User Defined,
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Gene Flow | |
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Spatiality | |
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Life Cycle | Discrete Generation Model,
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Mating System | Random Mating,
Monogamous,
Polygamous,
Haplodiploid,
Other,
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Fecundity | Randomly Distributed,
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Natural Selection | |
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Determinant | |
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Models | |
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Recombination | |
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Mutation Models | Markov DNA Evolution Models,
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Events Allowed | Varying Demographic Features,
Population Events,
Change of Mating Systems,
Other,
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Other | |
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Interface | Command-line,
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Development | |
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Tested Platforms | Windows,
Mac OS X,
Linux and Unix,
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Language | C or C++,
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License | GNU Public License,
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GSR Certification | |
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No example publication using SMARTPOP has been provided.
Please
propose new citations if you are aware of publications that use this software.