Literature DB >> 21565058

pedagog: software for simulating eco-evolutionary population dynamics.

Jason A Coombs1, B H Letcher, K H Nislow.   

Abstract

pedagog is a Windows program that can be used to determine power for, and validate inferences drawn from, eco-evolutionary studies. It models dynamics of multiple populations and their interactions through individual-based simulations while simultaneously recording genotype, pedigree and trait information at the individual level. pedagog also allows for specification of heritable traits, natural and sexual selection acting upon those traits, population sampling schemes and incorporation of genetic and demographic errors into the output. Overall, parameters can be specified for genetic diversity, demographics, mating design, genetic and demographic errors, individual growth models, trait heritability and selection, and output formatting. Demographic parameters can be either age or function based, and all parameters can be drawn from 12 statistical distributions where appropriate. Simulation results can be automatically formatted for 57 existing software programs to facilitate postsimulation analyses. pedagog is freely available for download at https://bcrc.bio.umass.edu/pedigreesoftware/.
© 2009 Blackwell Publishing Ltd.

Year:  2009        PMID: 21565058     DOI: 10.1111/j.1755-0998.2009.02803.x

Source DB:  PubMed          Journal:  Mol Ecol Resour        ISSN: 1755-098X            Impact factor:   7.090


  7 in total

Review 1.  Computer simulations: tools for population and evolutionary genetics.

Authors:  Sean Hoban; Giorgio Bertorelle; Oscar E Gaggiotti
Journal:  Nat Rev Genet       Date:  2012-01-10       Impact factor: 53.242

2.  skelesim: an extensible, general framework for population genetic simulation in R.

Authors:  Christian M Parobek; Frederick I Archer; Michelle E DePrenger-Levin; Sean M Hoban; Libby Liggins; Allan E Strand
Journal:  Mol Ecol Resour       Date:  2016-11-16       Impact factor: 7.090

3.  Metapop: An individual-based model for simulating the evolution of tree populations in spatially and temporally heterogeneous landscapes.

Authors:  Jean-Paul Soularue; Armel Thöni; Léo Arnoux; Valérie Le Corre; Antoine Kremer
Journal:  Mol Ecol Resour       Date:  2018-12-04       Impact factor: 7.090

4.  ALADYN - a spatially explicit, allelic model for simulating adaptive dynamics.

Authors:  Katja H Schiffers; Justin Mj Travis
Journal:  Ecography       Date:  2014-12-01       Impact factor: 5.992

5.  Simulation of molecular data under diverse evolutionary scenarios.

Authors:  Miguel Arenas
Journal:  PLoS Comput Biol       Date:  2012-05-31       Impact factor: 4.475

6.  Maintenance of phenotypic variation: repeatability, heritability and size-dependent processes in a wild brook trout population.

Authors:  Benjamin H Letcher; Jason A Coombs; Keith H Nislow
Journal:  Evol Appl       Date:  2011-03-08       Impact factor: 5.183

7.  Estimation of relatedness among non-pedigreed Yakutian cryo-bank bulls using molecular data: implications for conservation and breed management.

Authors:  Ilma Tapio; Miika Tapio; Meng-Hua Li; Ruslan Popov; Zoya Ivanova; Juha Kantanen
Journal:  Genet Sel Evol       Date:  2010-07-13       Impact factor: 4.297

  7 in total

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