fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios. Motivation: Genetic studies focus on increasingly larger genomic regions of both extant and ancient DNA, and there is a need for simulation software to match these technological advances. We present here a new coalescent-based simulation program fastsimcoal, which is able to quickly simulate a variety of genetic markers scattered over very long genomic regions with arbitrary recombination patterns under complex evolutionary scenarios. Availability and Implementation: fastsimcoal is a C++ program compiled for Windows, MacOsX and Linux platforms. It is freely available at cmpg.unibe.ch/software/fastsimcoal/, together with its detailed user manual and example input files.
Keywords for this software
References in zbMATH (referenced in 6 articles )
Showing results 1 to 6 of 6.
- Kamm, Jack; Terhorst, Jonathan; Durbin, Richard; Song, Yun S.: Efficiently inferring the demographic history of many populations with allele count data (2020)
- Ait Kaci Azzou, S.; Larribe, F.; Froda, S.: Inferring the demographic history from DNA sequences: an importance sampling approach based on non-homogeneous processes (2016)
- Duforet-Frebourg, Nicolas; Slatkin, Montgomery: Isolation-by-distance-and-time in a stepping-stone model (2016)
- Kimmel, Marek; Wojdyła, Tomasz: Genetic demographic networks: mathematical model and applications (2016)
- Kelleher, J.; Etheridge, A. M.; Barton, N. H.: Coalescent simulation in continuous space: algorithms for large neighbourhood size (2014)
- Excoffier, Laurent; Foll, Matthieu: Fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios (2011) ioport