Diego Ortega-Del Vecchyo1, Clare D Marsden2, Kirk E Lohmueller1,2,3. 1. Interdepartmental Program in Bioinformatics, University of California, Los Angeles, CA 90095, USA. 2. Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, USA. 3. Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, CA 90095, USA.
Abstract
The Poisson Random Field (PRF) model has become an important tool in population genetics to study weakly deleterious genetic variation under complicated demographic scenarios. Currently, there are no freely available software applications that allow simulation of genetic variation data under this model. Here we present PReFerSim, an ANSI C program that performs forward simulations under the PRF model. PReFerSim models changes in population size, arbitrary amounts of inbreeding, dominance and distributions of selective effects. Users can track summaries of genetic variation over time and output trajectories of selected alleles. AVAILABILITY AND IMPLEMENTATION: PReFerSim is freely available at: https://github.com/LohmuellerLab/PReFerSim CONTACT: klohmueller@ucla.eduSupplementary information: Supplementary data are available at Bioinformatics online.
The Poisson Random Field (PRF) model has become an important tool in population genetics to study weakly deleterious genetic variation under complicated demographic scenarios. Currently, there are no freely available software applications that allow simulation of genetic variation data under this model. Here we present PReFerSim, an ANSI C program that performs forward simulations under the PRF model. PReFerSim models changes in population size, arbitrary amounts of inbreeding, dominance and distributions of selective effects. Users can track summaries of genetic variation over time and output trajectories of selected alleles. AVAILABILITY AND IMPLEMENTATION: PReFerSim is freely available at: https://github.com/LohmuellerLab/PReFerSim CONTACT: klohmueller@ucla.eduSupplementary information: Supplementary data are available at Bioinformatics online.
Authors: Jacqueline A Robinson; Diego Ortega-Del Vecchyo; Zhenxin Fan; Bernard Y Kim; Bridgett M vonHoldt; Clare D Marsden; Kirk E Lohmueller; Robert K Wayne Journal: Curr Biol Date: 2016-04-21 Impact factor: 10.834
Authors: Margarita Takou; Tuomas Hämälä; Evan M Koch; Kim A Steige; Hannes Dittberner; Levi Yant; Mathieu Genete; Shamil Sunyaev; Vincent Castric; Xavier Vekemans; Outi Savolainen; Juliette de Meaux Journal: Mol Biol Evol Date: 2021-05-04 Impact factor: 16.240