Man pages for gen3sis
General Engine for Eco-Evolutionary Simulations

apply_ecologyapply_ecology allows the user to define the ecology of the...
apply_evolutionapply_evolution allows defining the function that changes the...
color_richnessdefine gen3sis richness color scale
create_ancestor_speciesThe function create_ancestor_species allows the user to...
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_noneevolution_mode_none
gen3sisgen3sis: General Engine for Eco-Evolutionary Simulations
get_dispersal_valuesget_dispersal_values allows the user to generates dispersal...
get_divergence_factorget_divergence_factor allows the user to define the rate at...
get_divergence_matrixThe function get_divergence_matrix returns the full...
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_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_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_configThis function verifies that all required config fields are...
write_config_skeletonwrites out a config skeleton, that is, an empty config file...
gen3sis documentation built on July 10, 2020, 5:13 p.m.