ArticleG3 (Bethesda, Md.)2022
genomicSimulation: fast R functions for stochastic simulation of breeding programs.
Article in G3 (Bethesda, Md.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- A haplotype-based approach to explore genotype-by-environment interactions for barley yield.The plant genome · 2026Article
- Coexistence in Sympatry With Gene Flow Before Speciation Has Completed.Molecular ecology · 2025Article
- Haplotype stacking to improve stability of stripe rust resistance in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Optimization of recurrent rapid cycle breeding in maize for sustained long-term genetic improvement via stochastic simulations.G3 (Bethesda, Md.) · 2025Article
- More bang for your buck: potential gains through optimizing maize breeding schemes in sub-Saharan Africa.Frontiers in plant science · 2025Article
- Multi-omic applications for understanding and enhancing tropical fruit flavour.Plant molecular biology · 2024Review
- Evolutionary computing to assemble standing genetic diversity and achieve long-term genetic gain.The plant genome · 2024Article
Corrections and comments
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Authors and funding
4 authors.
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Abstract
Simulation tools are key to designing and optimizing breeding programs that are multiyear, high-effort endeavors. Tools that operate on real genotypes and integrate easily with other analysis software can guide users toward crossing decisions that best balance genetic gains and genetic diversity required to maintain gains in the future. Here, we present genomicSimulation, a fast and flexible tool for the stochastic simulation of crossing and selection based on real genotypes. It is fully written in C for high execution speeds, has minimal dependencies, and is available as an R package for the integration with R's broad range of analysis and visualization tools. Comparisons of a simulated recreation of a breeding program to a real data set demonstrate the simulated offspring from the tool correctly show key population features, such as genomic relationships and approximate linkage disequilibrium patterns. Both versions of genomicSimulation are freely available on GitHub: The R package version at https://github.com/vllrs/genomicSimulation/ and the C library version at https://github.com/vllrs/genomicSimulationC/.
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