SIMplyBee: 'AlphaSimR' Extension for Simulating Honeybee Populations and Breeding Programmes
An extension of the 'AlphaSimR' package (<https://cran.r-project.org/package=AlphaSimR>) for stochastic simulations of honeybee populations and breeding programmes. 'SIMplyBee' enables simulation of individual bees that form a colony, which includes a queen, fathers (drones the queen mated with), virgin queens, workers, and drones. Multiple colony can be merged into a population of colonies, such as an apiary or a whole country of colonies. Functions enable operations on castes, colony, or colonies, to ease 'R' scripting of whole populations. All 'AlphaSimR' functionality with respect to genomes and genetic and phenotype values is available and further extended for honeybees, including haplo-diploidy, complementary sex determiner locus, colony events (swarming, supersedure, etc.), and colony phenotype values.
| Version: | 0.4.1 |
| Depends: | R (≥ 3.3.0), AlphaSimR (≥ 1.5.3) |
| Imports: | methods, R6, stats, utils, extraDistr (≥ 1.9.1), RANN, Rcpp (≥ 0.12.7) |
| LinkingTo: | Rcpp, RcppArmadillo (≥ 0.7.500.0.0), BH |
| Suggests: | rmarkdown, knitr, ggplot2, testthat (≥ 3.0.0), Matrix |
| Published: | 2024-09-20 |
| DOI: | 10.32614/CRAN.package.SIMplyBee |
| Author: | Jana Obšteter 
[aut, cre],
Laura Strachan
[aut],
Jernej Bubnič
[aut],
Gregor Gorjanc
[aut] |
| Maintainer: | Jana Obšteter <obsteter.jana at gmail.com> |
| License: | MIT + file LICENSE |
| URL: | https://github.com/HighlanderLab/SIMplyBee |
| NeedsCompilation: | yes |
| Citation: | SIMplyBee citation info |
| Materials: | README NEWS |
| In views: | Agriculture |
| CRAN checks: | SIMplyBee results |
Documentation:
| Reference manual: | SIMplyBee.pdf |
| Vignettes: |
Honeybee biology (source, R code) Multiple colonies (source, R code) Colony events (source, R code) Crossing (source, R code) Genomics (source, R code) Quantitative genetics (source, R code) Sampling functions (source, R code) Frequently asked questions (source, R code) |
Downloads:
| Package source: | SIMplyBee_0.4.1.tar.gz |
| Windows binaries: | r-devel: SIMplyBee_0.4.1.zip, r-release: SIMplyBee_0.4.1.zip, r-oldrel: SIMplyBee_0.4.1.zip |
| macOS binaries: | r-release (arm64): SIMplyBee_0.4.1.tgz, r-oldrel (arm64): SIMplyBee_0.4.1.tgz, r-release (x86_64): SIMplyBee_0.4.1.tgz, r-oldrel (x86_64): SIMplyBee_0.4.1.tgz |
| Old sources: | SIMplyBee archive |
Linking:
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