All Disturbance Layers

All Disturbance Layers

Usage

disturbance_all(
  spatial_grid,
  dhw_effects,
  cyc_effects,
  other_effects,
  matern_projection,
  config_sp
)

Arguments

spatial_grid

An sfc_POINT object representing the full spatial grid.

dhw_effects

Matrix of DHW disturbance effects.

cyc_effects

Matrix of cyclone disturbance effects.

other_effects

Matrix of other disturbance effects.

config_sp

A list with:

• years – vector of years to simulate

• seed – random seed

• dhw_weight – relative influence of DHW

• cyc_weight – relative influence of cyclones

• other_weight – relative influence of other disturbances

• hcc_growth – annual growth rate of hard coral

• sc_growth – annual growth rate of soft coral

spde

A list containing the SPDE mesh, SPDE object, precision matrix Q, and projection matrix A.

Value

A list with:

• disturb_effects – combined disturbance matrix

• all_effects_df – long-format data frame with cumulative effects

• all_effects – wide-format matrix of cumulative HCC effects

• disturb_pts_sample – projected effects onto the spatial grid

• disturb_pts_effects – long-format data frame for plotting

Details

Combines all disturbance effects (DHW, cyclones, other) with coral growth to produce cumulative effects per pixel. Calculations are performed on the link scale for simplicity. Macroalgae are calculated as the remaining available space: MA = Total space - HCC - SC.

Author

Murray