This page contains various coalescent simulations that we have written. These simulations make heavy use of two libraries, libsequence and the GNU Scientific Library. You will need those packages to be installed on your system before attempting to compile the software on this page. Note that the GSL is not our project, so any questions about that should be directed to their mailing lists.

Please remember to cite the relevant papers listed below if you use any of these packages for your research.

Simulation code from Thornton (2007) The neutral coalescent process for recent gene duplications and copy-number variants. Genetics 177: 987-1000

Simulation code from Thornton and Jensen (2007) Controlling the false-positive rate in multilocus genome scans for selection. Genetics 175: 737-750
This code simulates a sweep in a bottlenecked population, plus the ancestral population. See paper for details.

Simulation code for models of recurrent hitch-hlking used in Jensen, Thornton and Andolfatto (2008) PLoS Genetics