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SIMplyBee  

'AlphaSimR' Extension for Simulating Honeybee Populations and Breeding Programmes
View on CRAN: Click here


Download and install SIMplyBee package within the R console
Install from CRAN:
install.packages("SIMplyBee")

Install from Github:
library("remotes")
install_github("cran/SIMplyBee")

Install by package version:
library("remotes")
install_version("SIMplyBee", "0.4.1")



Attach the package and use:
library("SIMplyBee")
Maintained by
Jana Obšteter
[Scholar Profile | Author Map]
First Published: 2022-12-15
Latest Update: 2022-12-15
Description:
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.
How to cite:
Jana Obšteter (2022). SIMplyBee: 'AlphaSimR' Extension for Simulating Honeybee Populations and Breeding Programmes. R package version 0.4.1, https://cran.r-project.org/web/packages/SIMplyBee. Accessed 13 Apr. 2025.
Previous versions and publish date:
0.3.0 (2022-12-15 10:20), 0.4.0 (2024-08-26 09:30)
Other packages that cited SIMplyBee R package
View SIMplyBee citation profile
Other R packages that SIMplyBee depends, imports, suggests or enhances
Complete documentation for SIMplyBee
Functions, R codes and Examples using the SIMplyBee R package
Some associated functions: Colony-class . MultiColony-class . SIMplyBee-package . SimParamBee . addCastePop . buildUp . calcBeeGRMIbd . calcBeeGRMIbs . calcColonyValue . calcInheritanceCriterion . calcPerformanceCriterion . calcQueensPHomBrood . calcSelectionCriterion . collapse . combine . combineBeeGametes . combineBeeGametesHaploDiploid . combineNULLAndPop . createCastePop . createColony . createDCA . createMatingStationDCA . createMultiColony . createRandomCrossPlan . cross . downsize . downsizePFun . editCsdLocus . getAa . getBv . getCaste . getCasteId . getCastePop . getCasteSex . getCsdAlleles . getCsdGeno . getDd . getEvents . getGv . getIbdHaplo . getId . getLocation . getPheno . getPooledGeno . getQtlGeno . getQtlHaplo . getQueenAge . getQueenYearOfBirth . getSegSiteGeno . getSegSiteHaplo . getSnpGeno . getSnpHaplo . hasCollapsed . hasSplit . hasSuperseded . hasSwarmed . isCaste . isCsdActive . isCsdHeterozygous . isDronesPresent . isEmpty . isFathersPresent . isGenoHeterozygous . isNULLColonies . isProductive . isQueenPresent . isSimParamBee . isVirginQueensPresent . isWorkersPresent . mapCasteToColonyValue . nCaste . nColonies . nCsdAlleles . nDronesFun . nFathersFun . nVirginQueensFun . nWorkersFun . pullCastePop . pullColonies . pullDroneGroupsFromDCA . pullInd . reQueen . reduceDroneGeno . reduceDroneHaplo . removeCastePop . removeColonies . replaceCastePop . resetEvents . selectColonies . setLocation . setQueensYearOfBirth . simulateHoneyBeeGenomes . split . splitPFun . supersede . swarm . swarmPFun . 
Some associated R codes: Class-Colony.R . Class-MultiColony.R . Class-SimParamBee.R . Functions_L0_auxilary.R . Functions_L1_Pop.R . Functions_L2_Colony.R . Functions_L3_Colonies.R . SIMplyBee.R .  Full SIMplyBee package functions and examples
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