Genetic Simulation Engine

A shiny interface and supporting tools to guide users in choosing appropriate simulations, setting parameters, calculating summary genetic statistics, and organizing data output, all within the R environment. In addition to supporting existing forward and reverse-time simulators, new simulators can be integrated into the environment relatively easily.


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Description

skeleSim is a tool to guide users in choosing appropriate simulations, setting parameters, calculating summary genetic statistics, and organizing data output, all within the R environment. skeleSim is designed to be an extensible environment that can 'wrap' around any simulation software to increase its accessibility and use.

Installation

To install the latest version from GitHub:

# make sure you have Rtools installed
if (!require('devtools')) install.packages('devtools')
# install from GitHub
devtools::install_github('christianparobek/skeleSim', build_vignettes = TRUE)

Execution

To run the shiny app:

# Load the skeleSim package
library(skeleSim)
 
# Run the app
skeleSimGUI()

Contact

version 0.9.6

  • fixed bug in haplotype summary producing error:
Error in summary(loc.g)$strata.smry : 
  $ operator is invalid for atomic vectors

version 0.9.5

  • First CRAN release.

News

Reference manual

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install.packages("skeleSim")

0.9.8 by Allan Strand, 6 months ago


https://github.com/christianparobek/skeleSim


Report a bug at https://github.com/christianparobek/skeleSim/issues


Browse source code at https://github.com/cran/skeleSim


Authors: Eric Archer [aut], Michelle DePrenger-Levin [aut], Sean Hoban [aut], Libby Liggins [aut], Christian Parobek [aut], Allan Strand [aut, cre]


Documentation:   PDF Manual  


GPL-2 license


Imports adegenet, ape, hierfstat, pegas, markdown, methods, reshape2, rmetasim, strataG, swfscMisc

Depends on igraph, shiny, shinyFiles

Suggests knitr, rmarkdown, RJSONIO


See at CRAN