CoaSim: A flexible environment for simulating genetic data under coalescent models

Background: Coalescent simulations are playing a large role in interpreting large scale intraspecific sequence or polymorphism surveys and for planning and evaluating association studies. Coalescent simulations of data sets under different models can be compared to the actual data to test the importance of different evolutionary factors and thus get insight into these. Results: We have created the CoaSim application as a flexible environment for Monte Carlo simulation of various types of genetic data under equilibrium and non-equilibrium coalescent processes for a variety of applications. Interaction with the tool is through the Guile version of the Scheme scripting language. Scheme scripts for many standard and advanced applications are provided and these can easily be modified by the user for a much wider range of applications. A graphical user interface with less functionality and flexibility is also included. It is primarily intended as an exploratory and educational tool Conclusi...

• Type: Journal
• Year: 2005
• Where: BMCBI
• Authors: Thomas Mailund, Mikkel H. Schierup, Christian N. S. Pedersen, Peter J. M. Mechlenborg, Jesper N. Madsen, Leif Schauser
• Keywords: BMCBI 2005, Coalescent, Coalescent Simulations, Large Scale