plot_ranges: Plot species ranges of the given list of species on a...

In gen3sis: General Engine for Eco-Evolutionary Simulations

Plot species ranges of the given list of species on a landscape

Description

Plot species ranges of the given list of species on a landscape

Usage

plot_ranges(species_list, landscape, disturb = 0, max_sps = 10)

Arguments

species_list	a list of species to use in the richness calculation
landscape	a corresponding landscape object
disturb	value randomly added to shift each species symbol. Useful to enhance visualization in case of multiple species overlaps
max_sps	maximum number of plotted species, not recommended above 20

Value

no return value, called for plot

Examples

## plot from saved outputs
# get path containing outputs
datapath <- system.file(file.path("extdata", "WorldCenter"), package="gen3sis")
# get species at t0
species_t_50 <- readRDS(file.path(datapath,
                        "output/config_worldcenter/species/species_t_50.rds"))
# get landscape at t0
landscape_t_50 <- readRDS(file.path(datapath,
                          "output/config_worldcenter/landscapes/landscape_t_50.rds"))
# plot range
plot_ranges(species_t_50, landscape_t_50)

# get species at t0
species_t_25 <- readRDS(file.path(datapath, 
                        "output/config_worldcenter/species/species_t_25.rds"))
# get landscape at t0
landscape_t_25 <- readRDS(file.path(datapath, 
                        "output/config_worldcenter/landscapes/landscape_t_25.rds"))
# plot ranges at intermediate time-step
plot_ranges(species_t_25, landscape_t_25, disturb = 2, max_sps = 20)

## plot from within observer
# call plot_richness from inside the end_of_timestep_observer function 
# at the config file:
## Not run: 
plot_ranges(data$all_species, data$landscape)

## End(Not run) 

gen3sis documentation built on Nov. 22, 2023, 5:07 p.m.