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Bioinformatics. 2016 Dec 15;32(24):3839-3841. Epub 2016 Aug 24.

Discoal: flexible coalescent simulations with selection.

Author information

1
Department of Genetics.
2
Human Genetics Institute of New Jersey, Rutgers University, Piscataway, NJ 08554, USA.

Abstract

Here we describe discoal, a coalescent simulator able to generate population samples that include selective sweeps in a feature-rich, flexible manner. discoal can perform simulations conditioning on the fixation of an allele due to drift or either hard or soft sweeps-even those occurring a large genetic distance away from the simulated locus. discoal can simulate sweeps with recurrent mutation to the adaptive allele, recombination, and gene conversion, under non-equilibrium demographic histories and without specifying an allele frequency trajectory in advance.

AVAILABILITY AND IMPLEMENTATION:

discoal is implemented in the C programming language. Source code is freely available on GitHub (https://github.com/kern-lab/discoal) under a GNU General Public License.

CONTACT:

kern@dls.rutgers.edu or dan.schrider@rutgers.eduSupplementary information: Supplementary data are available at Bioinformatics online.

PMID:
27559153
PMCID:
PMC5167068
DOI:
10.1093/bioinformatics/btw556
[Indexed for MEDLINE]
Free PMC Article

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