simuPOP: A forward-time population genetics simulation environment

Bo Peng, Marek Kimmel

Research output: Contribution to journalArticle

187 Citations (Scopus)

Abstract

Summary: simuPOP is a forward-time population genetics simulation environment. The core of simuPOP is a scripting language (Python) that provides a large number of objects and functions to manipulate populations, and a mechanism to evolve populations forward in time. Using this R/Splus-like environment, users can create, manipulate and evolve populations interactively, or write a script and run it as a batch file. Owing to its flexible and extensible design, simuPOP can simulate large and complex evolutionary processes with ease. At a more user-friendly level, simuPOP provides an increasing number of built-in scripts that perform simulations ranging from implementation of basic population genetics models to generating datasets under complex evolutionary scenarios.

Original languageEnglish (US)
Pages (from-to)3686-3687
Number of pages2
JournalBioinformatics
Volume21
Issue number18
DOIs
StatePublished - Sep 15 2005

Fingerprint

Population Genetics
Simulation Environment
Boidae
Population
Python
Genetic Models
Batch
Language
Scenarios
Simulation
Model

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

simuPOP : A forward-time population genetics simulation environment. / Peng, Bo; Kimmel, Marek.

In: Bioinformatics, Vol. 21, No. 18, 15.09.2005, p. 3686-3687.

Research output: Contribution to journalArticle

Peng, Bo ; Kimmel, Marek. / simuPOP : A forward-time population genetics simulation environment. In: Bioinformatics. 2005 ; Vol. 21, No. 18. pp. 3686-3687.
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