plot_consumed_biomass: Circle diagram to visualize the consumed biomass for the...

In atlantistools: Process and Visualise Output from Atlantis Models

Description

Circle diagram to visualize the consumed biomass for the whole system.

Usage

plot_consumed_biomass(bio_consumed, select_time = NULL, show = 0.95)

Arguments

bio_consumed	Consumed biomass of prey groups by predatorgroup and agecl in tonnes for each timestep and polygon. Dataframe with columns 'pred', 'agecl', 'polygon', 'time', 'prey'. Consumed biomass in [t] is stored in column 'atoutput'. Should be generated with link{calculate_consumed_biomass}.
select_time	Numeric value to control the simulation time in years to visualize. By default the start of the simulation is shown. Default is NULL.
show	Numeric value between 0 - 1 to control the amount of links shown. Default is 0.95. Thus, the most important 95 are grouped together as 'Rest'.

Value

plot

Examples

## Not run: 
# Need to fix NAs in init cdf at some point.
plot_consumed_biomass(ref_bio_cons)
plot_consumed_biomass(ref_bio_cons, select_time = 1.8)
plot_consumed_biomass(ref_bio_cons, select_time = 1.8, show = 0.99)

# Add some gns testing.
load("z:/Atlantis_models/Runs/dummy_01_ATLANTIS_NS/preprocess-north-sea.rda", verbose = T)
plot_consumed_biomass(result$biomass_consumed, show = 0.95, select_time = 2.2)

times <- c(0.2, seq(10, 90, 10), 99.8)
par(mfcol = c(3, 4))
for (i in seq_along(times)) {
  plot_consumed_biomass(result$biomass_consumed, show = 0.95, select_time = times[i])
}

times <- seq(0.2, 2.2, 0.2)
# times <- times[times != 1]
par(mfcol = c(3, 4))
for (i in seq_along(times)) {
  plot_consumed_biomass(result$biomass_consumed, show = 0.95, select_time = times[i])
}

## End(Not run)

atlantistools documentation built on Aug. 16, 2017, 9:05 a.m.