Man pages for beeysian/cairnsmozzie
Agent-based model of Wolbachia release in a nice tidy package
| ABC_rep | library(mvtnorm) Function to run SMC ABC Created by Carla... |
| assign_grid | Assigns a point to a grid ID. Used for functions... |
| bb_to_matchedIDs | Determines the grid ID number for each grid space within a... |
| calculate_daily_EKS | New method of calculating Enzyme Kinetic Score for daily... |
| find_a_mate | Second try function for finding a mate, for pararellisation... |
| find_mate | Finds a mate for a female mosquitoes of breeding age. |
| find_trapped | Finds any possible adult mosquitoes that are trapped by a... |
| get_gridID | Given a latitude and longitude, determines the corresponding... |
| grid_to_land_type | Grabs the land type of a mosquito given its grid ID. Used for... |
| hello | Hello, World! |
| initialise_adults | Creates an initial data.table of adult agents. Since this is... |
| initialise_eggs | Creates a data.table of newly laid eggs to add to the... |
| initialise_enzyme_wmicroclim | Constructs the EKM chart with microclimates. Uses data about... |
| initialise_graveyard | Initialises graveyard data.table The graveyard is where the... |
| initialise_juveniles | Creates an initial data.table of juvenile agents. Since this... |
| initialise_juv_graveyard | Initialises juvenile graveyard data.table The entries here... |
| initialise_release | Simulates a release of Wolbachia-carrying mosquitoes.... |
| initialize_enzyme | Initialises the Enzyme Kinetic model lookup table for the... |
| init_juv_stage | Roughly determines the stage of a juvenile clutch given... |
| init_position | Generates random 'starting' positions for adult agents. Uses... |
| juv_emergence | Runs the 'juvenile emergence' step. Determines which juvenile... |
| juv_stage_update | Determines the juvenile agents that develop into the next... |
| juv_to_adult | Takes a juvenile agent and splits it into adult ages This is... |
| make_grid | Converts a polygon boundary into a grid mesh, but in... |
| make_plot_data | Makes plot data for one graveyard dataframe. Because I'm... |
| model_run | Function that runs the ABM, for use in ABC etc. This version... |
| model_run_new | God i don't know hopefully this will work. This version does... |
| mosquito_trapping | Trapping of mosquitoes. |
| partition_tempdev | Alternative temperature deviate scheme 3: The grid is... |
| plot_positions | Plots positions of mosquitoes in simulation region. |
| plot_proportions_by_buf | Plots proportion of mosquitoes trapped that have Wolbachia... |
| points_to_matchedIDs | Determines the grid ID number corresponding to each lat/long... |
| produce_eggs | Determines which mothers are ready to lay eggs and calls... |
| proportional_random_tempdev | Alternative temperature deviate scheme 2: Temperature... |
| random_dispersal | Random dispersal of a single agent according to distance... |
| release_clean | Clean release data. Since the method for estimating mosquito... |
| resize_clutch | Applies daily natural death rate to a juvenile clutch. |
| temperature_chart | Calculates the average daily temperature over the simulation... |
| trap_clean | Clean trapping data. Adds 3 columns at the end of the data... |
| trap_data_setup | Set up output file for trapping It's going to be in longform... |
| trap_empty | Gets Wolbachia infection proportion of traps at appropriate... |
| trap_setup | Sets up traps: Determines where unique traps positions are. |
| uniform_random_tempdev | Alternative temperature deviate scheme 1: Temperature... |
| update_enzyme | Gets the amount by which the Enzyme Kinetic Score for an... |
| update_enzyme_microclim | Gets the amount by which the Enzyme Kinetic Score for an... |
| update_juv_stage | Updates the development stage of juvenile agents. |
| when_trap_active | Not all traps are active during the entire simulation. This... |
| when_trap_empty | Returns a vector of the dates where we're "cleaning" out the... |
