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HighlanderLab / SIMplyBee

SIMplyBee R package extends AlphaSimR for simulating honeybee populations and breeding programmes
http://www.simplybee.info/
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Write vignette demonstrating spatial support #501

Closed gregorgorjanc closed 8 months ago

gregorgorjanc commented 1 year ago

There are many ways how to do this, but the idea is simply this. We want to generate phenotypes from such a model:

$$y_i = mu + g_i + l_i + e_i,$$

where $l_i$ is a location effect and these effects are such that locations close together have a similar effect. We have done this in this study https://gsejournal.biomedcentral.com/articles/10.1186/s12711-020-00588-w, which has an appendix with simulation and analysis code at https://figshare.com/articles/code/Additional_File_2/12403898 - specifically, we should look at SimulatePhenotype.R and SimulateSpatialEffects.R

gregorgorjanc commented 8 months ago

We will show how to do this in the next paper covering/adding spatial support - see https://github.com/HighlanderLab/SIMplyBee/issues/521 and future work.

gregorgorjanc commented 8 months ago

Done by @janaobsteter in devel:

https://github.com/HighlanderLab/SIMplyBee/commit/c9576aac81565b876b081a27716d9521cb654e5e