Man pages for gen3sis
General Engine for Eco-Evolutionary Simulations

apply_ecologyAllows the user to define the ecological consequences for...
apply_evolutionAllows defining the function that changes the values of...
color_richnessDefine gen3sis richness color scale
create_ancestor_speciesAllows the user to populate the world at the beginning of a...
create_input_configCreates either an empty configuration or a pre-filled...
create_input_landscapecreate an landscape input from a named list of rasters or...
create_speciesCreates a new species
evolution_mode_noneNo evolution considered
gen3sisgen3sis: General Engine for Eco-Evolutionary Simulations
get_dispersal_valuesAllows the user to generates dispersal value(s) for a given...
get_divergence_factorAllows the user to define the rate at which geographic...
get_divergence_matrixReturns the full divergence matrix for a given species (site...
get_geo_richnesscalculate the richness of a list of species over a given...
plot_landscapePlot the environment variable of a given landscape
plot_landscape_overviewPlot the outline of a given landscape over time
plot_rangesPlot species ranges of the given list of species on a...
plot_raster_multiplePlot a set of values onto a given landscape
plot_raster_singlePlot a single set of values onto a given landscape
plot_richnessPlot the richness of the given list of species on a landscape
plot_species_abundancePlot a species' abundance on a given landscape
plot_species_presencePlot a species' presence on a given landscape
plot_summaryPlot simulation default summary object
prepare_directoriesChecks if the necessary directories exist, and otherwise...
run_simulationRun a simulation in gen3sis and return a summary object...
save_abundanceThis function can be called within the observer function to...
save_divergenceThis function can be called within the observer function to...
save_landscapeThis function can be called within the observer function to...
save_occupancyThis function can be called within the observer function to...
save_phylogenyThis function can be called within the observer function to...
save_richnessThis function can be called within the observer function to...
save_speciesThis function can be called within the observer function to...
save_traitsThis function can be called within the observer function to...
skeleton_configempty skeleton config
verify_configVerifies if all required config fields are provided
write_config_skeletonWrites out a config skeleton
gen3sis documentation built on Oct. 27, 2021, 5:09 p.m.