R: Length-Based Multispecies Analysis by Numerical Simulation

# Length-Based Multispecies Analysis by Numerical Simulation

## Documentation for package ‘LeMaRns’ version 0.1.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

calc_biomass | Calculate Spawning Stock Biomass (SSB) or total biomass
calc_growth | Calculate growth
calc_LFI | Calculate community indicators
calc_LQ | Calculate community indicators
calc_M1 | Calculate background mortality
calc_M1_constRNM | Calculate background mortality
calc_M1_lin | Calculate background mortality
calc_M1_stdRNM | Calculate background mortality
calc_M2 | Calculate predation mortality
calc_mature | Calculate the proportion of mature individuals
calc_phi | Calculate the proportion of individuals that leave each length class for each species each length class each time step.
calc_prefs | Calculate predator-prey size preferences
calc_Q | Calculate gear catchability
calc_ration_growthfac | Calculate growth increments
calc_recruits | Calculate the number of recruits
calc_SSB | Calculate Spawning Stock Biomass (SSB) or total biomass
calc_suit_vect | Combines prey preference and prey suitability
calc_TyL | Calculate community indicators
comb_LeMans_run | Combine two 'LeMans_outputs' objects
get_annual_catch | Get annual catch for each species, catch per unit effort or catch per gear
get_annual_catch-method | Get annual catch for each species, catch per unit effort or catch per gear
get_biomass | Calculate Spawning Stock Biomass (SSB) or total biomass
get_biomass-method | Calculate Spawning Stock Biomass (SSB) or total biomass
get_CPG | Get annual catch for each species, catch per unit effort or catch per gear
get_CPG-method | Get annual catch for each species, catch per unit effort or catch per gear
get_CPUE | Get annual catch for each species, catch per unit effort or catch per gear
get_CPUE-method | Get annual catch for each species, catch per unit effort or catch per gear
get_indicators | Calculate indicators
get_indicators-method | Calculate indicators
get_LFI | Calculate indicators
get_LFI-method | Calculate indicators
get_LQ | Calculate indicators
get_LQ-method | Calculate indicators
get_M1 | Calculate background mortality
get_MML | Calculate indicators
get_MML-method | Calculate indicators
get_N0 | Generate a starting value for N
get_Q | Calculate gear catchability
get_rec_fun | Collate the stock recruitment functions
get_SSB | Calculate Spawning Stock Biomass (SSB) or total biomass
get_SSB-method | Calculate Spawning Stock Biomass (SSB) or total biomass
get_TyL | Calculate indicators
get_TyL-method | Calculate indicators
knife_edge_catch | Calculate gear catchability
LeMansParam | A constructor for the 'LeMansParam' class
LeMansParam-method | A constructor for the 'LeMansParam' class
LeMans_outputs-class | An S4 class representing the outputs of the LeMans model
LeMans_param-class | An S4 class representing the inputs of the LeMans model
logistic_catch | Calculate gear catchability
log_gaussian_catch | Calculate gear catchability
make_rec_fun | Generate the stock recruitment functions
NS_eta | The steepness of the slope of the catchability curve
NS_L50 | The length at 50% of the maximum catchability of the catchability curve
NS_mixed_fish | Gear selectivity data frame
NS_other | Other food for the North Sea
NS_par | North Sea data
NS_tau | North Sea interaction matrix
plot_biomass | Plot Spawning Stock Biomass (SSB)
plot_biomass-method | Plot Spawning Stock Biomass (SSB)
plot_indicators | Plot indicators
plot_indicators-method | Plot indicators
plot_LFI | Plot indicators
plot_LFI-method | Plot indicators
plot_LQ | Plot indicators
plot_LQ-method | Plot indicators
plot_MML | Plot indicators
plot_MML-method | Plot indicators
plot_SSB | Plot Spawning Stock Biomass (SSB)
plot_SSB-method | Plot Spawning Stock Biomass (SSB)
plot_TyL | Plot indicators
plot_TyL-method | Plot indicators
rec_BH | The Beverton-Holt stock recruitment function
rec_const | The constant stock recruitment function
rec_hockey | The hockey-stick stock recruitment function
rec_linear | The density-independent stock recruitment function
rec_Ricker | The Ricker stock recruitment function
run_LeMans | Project the LeMans model
run_LeMans-method | Project the LeMans model