Generating samples under a Wright–Fisher neutral model of genetic variation

• Published in: Bioinformatics Vol. 18; no. 2; pp. 337 - 338
• Main Author: HUDSON, Richard R
• Format: Journal Article
• Language: English
• Published: Oxford Oxford University Press 01-02-2002; Oxford Publishing Limited (England)
• Subjects: Biological and medical sciences; Computational Biology; Fundamental and applied biological sciences. Psychology; Gene Conversion; General aspects; Genetic Variation; Genetics, Population; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Models, Genetic; Monte Carlo Method; Recombination, Genetic; Software; Software; Bioinformatics; Algorithm; Population genetics; Modeling; Statistics
• ISSN: 1367-4803; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/18.2.337

A Monte Carlo computer program is available to generate samples drawn from a population evolving according to a Wright–Fisher neutral model. The program assumes an infinite-sites model of mutation, and allows recombination, gene conversion, symmetric migration among subpopulations, and a variety of demographic histories. The samples produced can be used to investigate the sampling properties of any sample statistic under these neutral models. Availability: The source code for the program (in the language C) is available at http://home.uchicago.edu/~rhudson1/source/mksamples.html. Contact: [e-mail]