atlantistools (version 0.4.3)

plot_diet: Plot contribution of diet contents for each functional group.

Description

Visualize diet proportions form predator and prey perspective. The upper panel plot shows the predator perspective while the lower panel plot shows the prey perspective for a given group. Please note that this function only works with models based on the trunk code. Bec_dev models should use plot_diet_bec_dev to get an indication of the feeding interactions.

Usage

plot_diet(bio_consumed, species = NULL, wrap_col = "agecl",
  combine_thresh = 7)

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}.

species

Character string giving the acronyms of the species you aim to plot. Default is NULL resulting in all available species being ploted.

wrap_col

Character specifying the column of the dataframe to be used as multipanel plot. Default is "agecl".

combine_thresh

Number of different categories to plot. Lets say predator X has eaten 20 different prey items. If you only want to show the 3 most important prey items set combine_thresh to 3. As rule of thumb values < 10 are useful otherwise to many colors are used in the plots. Default is 7.

Value

List of grobs composed of ggplot2 objects.

See Also

Other plot functions: plot_bar, plot_boxes, plot_diet_bec_dev, plot_line, plot_rec, plot_species

Examples

# NOT RUN {
plots <- plot_diet(ref_bio_cons, wrap_col = "agecl")
gridExtra::grid.arrange(plots[[1]])
gridExtra::grid.arrange(plots[[7]])

# Use names() to get the species names!
names(plots)
# }
# NOT RUN {
plot <- plot_diet(ref_bio_cons, species = "Small planktivorous fish", wrap_col = "agecl")
gridExtra::grid.arrange(plot[[1]])
# }