A flexible forward simulator for populations subject to selection and demography.
This article introduces a new forward population genetic simulation program that can efficiently generate samples from populations with complex demographic histories under various models of natural selection. The program (SFS_CODE) is highly flexible, allowing the user to simulate realistic genomic regions with several loci evolving according to a variety of mutation models (from simple to context-dependent), and allows for insertions and deletions. Each locus can be annotated as either coding or non-coding, sex-linked or autosomal, selected or neutral, and have an arbitrary linkage structure (from completely linked to independent).


BACKGROUND
The source code (written in the C programming language) is available at http://sfscode.sourceforge.net, and a web server (http://cbsuapps.tc.cornell.edu/sfscode.aspx) allows the user to perform simulations using the high-performance computing cluster hosted by the Cornell University Computational Biology Service Unit.
Hernandez
Ryan D
RD
Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14850, USA. rhernandez@uchicago.edu
D000465:Algorithms; D005075:Biological Evolution; D003198:Computer Simulation; D003710:Demography; D005828:Genetics, Population; D015894:Genome, Human; D006801:Humans; D008957:Models, Genetic; D011153:Population / Q000235:genetics*; D012641:Selection, Genetic; D012984:Software