Man pages for peterkuriyama/hlsimulator
Simulate Hook and Line Survey
| calc_cpue | Calculate CPUE Function to calculate cpue |
| calc_mare_slopes | Calculate median absolute relative error and slopes Function... |
| change_two | Function to modify two factors Function to modify two factors |
| compare_three_surveys | Compare three surveys |
| conduct_survey | Conduct Survey Wrapper to repeatedly run fish_population... |
| define_locs | Define Fishing Locations Function to define fishing locations... |
| define_movement | Define Movement range of each location Function to define... |
| explore_nlocs_cpue | Conduct survey at nlocaitons and save cpue for each drop |
| filled.contour2 | Filled Contour 2 Modification of filled.contour function |
| fish_pop_loop | Fish population in a loop function Function to fish... |
| fish_population | Fish the Population |
| fixed_parallel | Function that takes fixed inputs and runs scenarios Function... |
| format_plot_input | Format Plot Input Function to format the simulation output... |
| get_rand_locs | Get Random Fishing Locations |
| hook_probs | Hook Probabilities |
| initialize_population | Initialize Population |
| initialize_population_prob | Initialize Population Probabilities |
| make_ctl | Make Control |
| move_back | Move fish back Function that moves fish back to their... |
| move_fish | Move Fish Function to move fish |
| move_fish_cw | Move Fish Clockwise |
| move_fish_hs | Move Fish based on Hotspots |
| move_fish_left | Move Fish Left |
| move_fish_loop | Move fish in for loop Function that moves fish by looping... |
| move_fish_none | Move Fish None |
| parse_master_list | parse_master_list |
| pick_sites | Pick Sites Function to pick number of good, medium, and bad... |
| pick_sites_prob | Pick Sites based on probability Function to pick number of... |
| plot_annual_cpue_nfish | Plot annual cpue nfish |
| plot_average_cpue | Ploat Average CPUE Function to plot the average cpue. Calls... |
| run_and_plot | Run and Plot Function |
| run_locs | Run Different Seeds with location scenarios Function takes... |
| run_locs_2spp | Loop over locations with two species Function to loop over... |
| run_replicates | Run replicates of things Function to run replicates of... |
| run_sampled_locs | Run Simulation with preferential and random location sampling... |
| run_sampled_locs_2spp | Run Simulation with preferential and random location sampling... |
| run_scenario | Run Scenarios Function to run scenarios in parallel. Returns... |
| run_sim | Run Simulation |
| sample_change | sample_change Function to calculate power of the survey |
| sample_equal_prob | Conduct Survey Wrapper to repeatedly run fish_population... |
| sample_exp | Exponential Fish Sampling Function that samples based on... |
| sample_good_locs | Sample Good Locations Conduct survey in a proportion of... |
| send_email | Send email that run is done Function to send an email,... |
| survey_over_years | Initialize Population |
| visualize_fishing | Visualize Fishing location Function to visualize fishing... |
