Man pages for pwoodworth-jefcoats/Size-Based-Modeling
Mizer With The Effects Of Temperature Included
| getBiomass | Calculate the total biomass of each species within a size... |
| getCommunitySlope | Calculate the slope of the community abundance |
| getEGrowth | getEGrowth method for the size based model |
| getEReproAndGrowth | getEReproAndGrowth method for the size based model |
| getESpawning | getESpawning method for the size based model |
| getFeedingLevel | getFeedingLevel method for the size based model |
| getFMort | Get the total fishing mortality from all fishing gears by... |
| getFMortGear | Get the fishing mortality by time, gear, species and size |
| get_initial_n | Calculate initial population abundances for the community... |
| getM2 | getM2 method for the size based model |
| getM2Background | getM2Background method for the size based model |
| getMeanMaxWeight | Calculate the mean maximum weight of the community |
| getMeanWeight | Calculate the mean weight of the community |
| getN | Calculate the total abundance in terms of numbers of species... |
| getPhiPrey | getPhiPrey method for the size based model |
| getPredRate | 'getPredRate' method for the size based model |
| getProportionOfLargeFish | Calculate the proportion of large fish |
| getRDD | getRDD method for the size based model |
| getRDI | getRDI method for the size based model |
| getSSA | Calculate the SSA of species |
| getSSB | Calculate the SSB of species |
| getTempEffectEncount | Get the total temperature effect on encounter rate across all... |
| getTempEffectMetab | Get the total temperature effect on metabolism across all... |
| getTempEffectRealmEncount | getTempEffectRealmEncount method for the size based model |
| getTempEffectRealmMetab | getTempEffectRealmMetab method for the size based model |
| getYield | Calculate the total yield of each species |
| getYieldGear | Calculate the total yield per gear and species |
| getYieldGearN | Calculate the total yield in numbers per gear and species |
| getYieldGearSize | Calculate the total yield per gear, species, and size |
| getYieldN | Calculate the total yield in numbers of each species |
| getYieldSize | Calculate the total yield of each species by size |
| getZ | getZ method for the size based model |
| inter | Example interaction matrix for the North Sea example |
| knife_edge | Size based knife-edge selectivity function |
| knife_edge_phased | Size based knife-edge selectivity function that is phased in |
| mig_window | Size based window selectivity function |
| NS_species_params | Example parameter set based on the North Sea |
| NS_species_params_gears | Example parameter set based on the North Sea with different... |
| plotBiomass | Plot the biomass of each species through time |
| plotFeedingLevel | Plot the feeding level of each species by size |
| plotFMort | Plot total fishing mortality of each species by size |
| plotM2 | Plot M2 of each species by size |
| plotSpectra | Plot the abundance spectra of each species and the background... |
| plotTempEffectEncount | Plot total temperature effect on encounter rate on each... |
| plotTempEffectMetab | Plot total temperature effect on metabolism on each species... |
| plot_therMizer | Summary plot for 'therMizerSim' objects |
| plotYield | Plot the total yield of each species through time |
| plotYieldGear | Plot the total yield of each species by gear through time |
| project_therMizer | project_therMizer method for the size based modelling |
| set_community_model | Sets up parameters for a community-type model |
| set_trait_model | Sets up parameters for a trait-based model |
| sigmoid_length | Length based sigmoid selectivity function |
| summary-therMizerParams-method | Summarize therMizerParams object |
| summary-therMizerSim-method | Summarize therMizerSim object |
| therMizer | therMizer: mizer with the effects of temperature on... |
| therMizerParams | Constructors for objects of 'therMizerParams' class |
| therMizerParams-class | A class to hold the parameters for a size based model. |
| therMizerSim | Constructor for the 'therMizerSim' class |
| therMizerSim-class | therMizerSim |
