Table 1.

Coalescent Simulators for Genomic Data Under Different Evolutionary and Demographic Scenarios

Simulator	Vrec	Sel	Vmu	GConv	Mig	HS	Vdm	Phen	Reference
ms	No	No	No	Yes	Yes	No	Yes	No	(Hudson, 2002)
SNPsim	Yes	No	Yes	No	No	Yes	Yes	No	(Posada and Wiuf, 2003)
SIMCOAL2	Yes	No	Yes	No	Yes	No	Yes	No	(Laval and Excoffier, 2004)
Coasim	Yes	No	Yes	Yes	Yes	Yes	Yes	Yes	(Mailund et al., 2005)
Cosi	Yes	No	Yes	Yes	Yes	Yes	Yes	No	(Schaffner et al., 2005)
GeneArtisan	Yes	Yes	No	No	No	Yes	No	Yes	(Wang and Rannale, 2005)
FastCoal	Yes	No	No	No	Yes	Yes	Yes	No	(Marjoram and Wall, 2006)
Recodon	Yes	Yes	No	No	Yes	No	No	No	(Arenas and Posada, 2007)
msHot	Yes	No	No	Yes	Yes	Yes	Yes	No	(Hellenthal and Stephens, 2007)
GENOME	Yes	No	No	No	Yes	Yes	No	No	(Liang et al., 2007)
Mlcoalsim	Yes	Yes	Yes	No	Yes	Yes	Yes	No	(Ramos-Onsins and Mitchell-Olds, 2007)
MaCS	Yes	No	No	Yes	Yes	Yes	Yes	Yes	(Chen et al., 2009)

Note that all of the above listed simulators allow for recombination. “Yes” or “No” indicates whether a simulator incorporates a given modeling capability. Vrec, variable recombination rates; Sel, selection; Vmu, various mutation models; GConv, gene conversion; Mig, migration; HS, recombination, mutation, or gene conversion hotspots; Vdm, various demographic models; Phen, generates phenotypes (i.e., quantitative or binary [case-control] traits).