skeleSim: 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.

AuthorEric Archer [aut], Michelle DePrenger-Levin [aut], Sean Hoban [aut], Libby Liggins [aut], Christian Parobek [aut], Allan Strand [aut, cre]
Date of publication2016-09-15 00:19:30
MaintainerAllan Strand <stranda@gmail.com>
LicenseGPL-2
Version0.9.5
https:://github.com/christianparobek/skelesim

View on CRAN

Files in this package

skeleSim
skeleSim/inst
skeleSim/inst/shiny
skeleSim/inst/shiny/skeleSimShinyGUI
skeleSim/inst/shiny/skeleSimShinyGUI/ui.R
skeleSim/inst/shiny/skeleSimShinyGUI/server.R
skeleSim/inst/shiny/skeleSimShinyGUI/update-ui.R
skeleSim/inst/shiny/skeleSimShinyGUI/utils.R
skeleSim/inst/shiny/skeleSimShinyGUI/debug.R
skeleSim/inst/shiny/skeleSimShinyGUI/vizfuncs.R
skeleSim/inst/shiny/skeleSimShinyGUI/simcoal-server.R
skeleSim/inst/shiny/skeleSimShinyGUI/saveParams.R
skeleSim/inst/shiny/skeleSimShinyGUI/vizServer.R
skeleSim/inst/shiny/skeleSimShinyGUI/mig.matrix.R
skeleSim/inst/shiny/skeleSimShinyGUI/simcoal-history.R
skeleSim/inst/shiny/skeleSimShinyGUI/serverInit.R
skeleSim/inst/shiny/skeleSimShinyGUI/modules
skeleSim/inst/shiny/skeleSimShinyGUI/modules/matrixInputs.R
skeleSim/inst/shiny/skeleSimShinyGUI/modules/tableinput.R
skeleSim/inst/shiny/skeleSimShinyGUI/README.md
skeleSim/inst/shiny/skeleSimShinyGUI/intro-questions-server.R
skeleSim/inst/shiny/skeleSimShinyGUI/vizAbstract.R
skeleSim/inst/shiny/skeleSimShinyGUI/test.ssClass.rdata
skeleSim/inst/shiny/skeleSimShinyGUI/scenarios-server.R
skeleSim/inst/shiny/skeleSimShinyGUI/serverplots.R
skeleSim/inst/shiny/skeleSimShinyGUI/sanity-checks.R
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/rmetasim-loci.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/help-questions.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/lefkovitch.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/help-migration.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/help-history.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/file-ops.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/simulations.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/load-params.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/skelesim-general-help.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/save-params.md
skeleSim/inst/shiny/skeleSimShinyGUI/helpfiles/rmetasim-alleles.md
skeleSim/inst/shiny/skeleSimShinyGUI/rmetasim-server.R
skeleSim/inst/shiny/skeleSimShinyGUI/runSim.R
skeleSim/inst/shiny/skeleSimShinyGUI/make-skelesim-class.R
skeleSim/inst/shiny/skeleSimShinyGUI/loadParams.R
skeleSim/inst/shiny/skeleSimShinyGUI/visualize.R
skeleSim/inst/shiny/skeleSimShinyGUI/global.R
skeleSim/inst/tableinput
skeleSim/inst/tableinput/tableinput.js
skeleSim/inst/tableinput/tableinput.css
skeleSim/inst/doc
skeleSim/inst/doc/Forecasting.R
skeleSim/inst/doc/SampleSize.Rmd
skeleSim/inst/doc/SampleSize.html
skeleSim/inst/doc/Installing.Rmd
skeleSim/inst/doc/Simulating.html
skeleSim/inst/doc/Simulating.R
skeleSim/inst/doc/Installing.html
skeleSim/inst/doc/Installing.R
skeleSim/inst/doc/Simulating.Rmd
skeleSim/inst/doc/Forecasting.Rmd
skeleSim/inst/doc/Forecasting.html
skeleSim/inst/doc/SampleSize.R
skeleSim/NAMESPACE
skeleSim/R
skeleSim/R/rms.internals.R skeleSim/R/fsc.loadScenario.R skeleSim/R/rms.init.landscape.R skeleSim/R/fsc.classes.R skeleSim/R/skeleSim.classes.R skeleSim/R/rms.classes.R skeleSim/R/rms.scenarioCheck.R skeleSim/R/skeleSim.checks.R skeleSim/R/rms.run.R skeleSim/R/fsc.scenarioCheck.R skeleSim/R/analysis.funcs.R skeleSim/R/skeleSim-package.R skeleSim/R/fsc.run.R skeleSim/R/rms.convert.R skeleSim/R/getGammaMutRates.R skeleSim/R/rms.init.land.function.R skeleSim/R/runSim.R skeleSim/R/skeleSim.internals.R skeleSim/R/skeleSimGUI.R
skeleSim/vignettes
skeleSim/vignettes/SampleSize.Rmd
skeleSim/vignettes/SampleSizeImages
skeleSim/vignettes/SampleSizeImages/screen6_loci.JPG
skeleSim/vignettes/SampleSizeImages/screen2_GenConf.JPG
skeleSim/vignettes/SampleSizeImages/screen7_simcoal_history.JPG
skeleSim/vignettes/SampleSizeImages/screen5_migr_rates.JPG
skeleSim/vignettes/SampleSizeImages/screen3_ScenConf.JPG
skeleSim/vignettes/Choosemetasim.png
skeleSim/vignettes/Installing.Rmd
skeleSim/vignettes/obsvdheterozygosity.png
skeleSim/vignettes/ScenarioConf_PopChar.png
skeleSim/vignettes/ForecastImages
skeleSim/vignettes/ForecastImages/screen1_Actions.png
skeleSim/vignettes/ForecastImages/screen8_ssClass.png
skeleSim/vignettes/ForecastImages/screen4_Migr_rate.png
skeleSim/vignettes/ForecastImages/RmetasimLocus.png
skeleSim/vignettes/ForecastImages/screen2_Gen_Conf.png
skeleSim/vignettes/ForecastImages/screen6_Metasim_pop_matrices.png
skeleSim/vignettes/ForecastImages/screen5_Loc_Mut_rate.png
skeleSim/vignettes/ForecastImages/screen3_Pop_Samp_Sizes.png
skeleSim/vignettes/ForecastImages/screen9_Scen2_diff_migr.png
skeleSim/vignettes/ForecastImages/screen7_Metasim_allele_freq.png
skeleSim/vignettes/ScenarioConf_LocChar.png
skeleSim/vignettes/Simulating.Rmd
skeleSim/vignettes/Choosermetasim2.png
skeleSim/vignettes/Forecasting.Rmd
skeleSim/README.md
skeleSim/MD5
skeleSim/build
skeleSim/build/vignette.rds
skeleSim/DESCRIPTION
skeleSim/man
skeleSim/man/skeleSimGUI.Rd skeleSim/man/rms.init.landscape.func.Rd skeleSim/man/rms.init.landscape.Rd skeleSim/man/rms.scenarioCheck.Rd skeleSim/man/getGammaMutRates.Rd skeleSim/man/rms.write.Rd skeleSim/man/fsc.scenarioCheck.Rd skeleSim/man/rms.convert.Rd skeleSim/man/fsc.run.Rd skeleSim/man/fsc.write.Rd skeleSim/man/rms.run.Rd skeleSim/man/analysis.funcs.Rd skeleSim/man/fsc.loadScenario.Rd skeleSim/man/rmetasim.classes.Rd skeleSim/man/fastsimcoal.params-class.Rd skeleSim/man/skeleSim.checks.Rd skeleSim/man/skeleSim-package.Rd skeleSim/man/skeleSim.internals.Rd skeleSim/man/runSim.Rd skeleSim/man/skeleSim.classes.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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