Code and package (LinSimTool) to performe astrocyte lineage simulation
This simulation requires R and Rstudio. For downloads see https://cran.r-project.org/ and https://www.rstudio.com/products/rstudio/download/
The simulation functions are in the SimLinTool package , the script SimulationScriptAstrocyteCerebellum.R performs the simulations shown in Cerrato et al. Plos Biology 2018 (https://doi.org/10.1371/journal.pbio.2005513)
The datasets are embedded in the SimLinTool package and also available as tab delimited tables in the folder data_tabDelimited
To install the package SimLinTool and run simulations:
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Install devtools
install.pacakges("devtools")
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Load devtools
library(devtools) # NB: this takes a little while
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Install LinSimTool
install_github(repo = "marionbetizeau/CerebellumAstrocyteSimulation")
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Datasets are: Clones_E12_P0, Clones_E12_P30, Clones_E14_P0, Clones_E14_P30 to get a description of the measured datasets use:
?Clones_E12_P0
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Download the script SimulationScriptAstrocyteCerebellum.R, possibility to choose the output folder and change the parameters (see script)
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Run the entire script using the "source" button top right of Rstudio editor window