Working with Dynamic Models for Agriculture and Environment
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Documentation for package ‘ZeBook’ version 1.1
- DESCRIPTION file.
- Code demos. Use demo() to run them.
Help Pages
| ZeBook-package | Working with Dynamic Models for Agriculture and Environment |
| AICf | Calculate AIC, Akaike's Information Criterion |
| Bean | Bean gene-based models dataset |
| carbonsoil.model | The CarbonSoil model - calculate daily values over designated time period |
| carbonsoil.update | The CarbonSoil model - calculate change in soil carbon for one year |
| carcass.define.param | Define values of the parameters for the Carcass model |
| carcass.EMI.model | The Carcass (growth of beef cattle) model with energy as input |
| carcass.EMI.model2 | The Carcass model function for use with carcass.EMI.simule |
| carcass.EMI.multi | Wrapper function to run Carcass model on several animals with different conditions |
| carcass.EMI.simule | Wrapper function to the Carcass model for multiple sets of parameter values |
| carcass.model | The Carcass (growth of beef cattle) model |
| carcass_data | Data of growth of beef cattle for Carcass model |
| carrot.weevil.model | Carrot weevil development model |
| chicks_data | Data of growth of chicks |
| cotton.model | The Cotton model (dynamic for numbers of Cotton fruiting points). |
| epirice.define.param | Define values of the parameters for the Epirice model |
| epirice.model | The Epirice model (Disease model for rice) |
| epirice.multi.simule | Wrapper function to run Epirice multiple times (for multiple sets of inputs) |
| epirice.weather | Read weather data for Epirice (southern Asia weather) |
| evaluation.criteria | Calcule multiple goodness-of-fit criteria |
| exponential.model | The Exponential growth model of dynamic of population |
| exponential.model.bis | The Exponential growth model of dynamic of population - another form |
| exponential.model.ie | The Exponential growth model of dynamic of population - with improved Euler integration |
| goodness.of.fit | Calcule multiple goodness-of-fit criteria |
| graph_epid | Plot output of a Classical SEIR model for plant disease |
| graph_epid_s | Plot output of a Classical SEIR model for plant disease |
| lactation.calf.model | The Lactation model |
| lactation.calf.model2 | The Lactation model for use with lactation.calf.simule |
| lactation.calf.simule | Wrapper function to run the Lactation model for multiple sets of parameter values |
| lactation.define.param | Define values of the parameters for the Lactation model |
| lactation.machine.model | The Lactation model with milking machine |
| lactation.machine.model2 | The Lactation model for use with lactation.machine.simule |
| magarey.define.param | Define values of the parameters for the Magarey model |
| magarey.model | The Magarey model |
| magarey.model2 | The Magarey model, taking a vector of parameters as argument |
| magarey.simule | Wrapper function to run the Magarey model multiple times (for multiple sets of inputs) |
| maize.data_EuropeEU | maize biomass and leaf area data |
| maize.data_MetaModelling | dataset of simulation for maize final biomass |
| maize.define.param | Define values of the parameters for the Maize model |
| maize.model | The basic Maize model. |
| maize.model2 | The basic Maize model for use with maize.simule |
| maize.muchow.graph | Plot dynamic output of Muchow Maize model. |
| maize.muchow.model | Maize model, with harvest index and yield from Muchow et al. (1990) |
| maize.multisy | Wrapping function to run maize model on several site-years |
| maize.multisy240 | Wrapper function to run Maize model for multiple sets of input variables (site-year) and give Biomass at day240. |
| maize.RUEtemp | Calculate effect of temperature on RUE for Maize |
| maize.simule | Wrapper function to run Maize model for multiple sets of parameter values |
| maize.simule240 | Wrapper function to run Maize model multiple times for multiple sets of parameter values and give Biomass at day240 |
| maize.simule_multisy240 | Wrapper function to run Maize model for multiple sets of parameter values (virtual design) and multiple sets of input variables (site-year) and give Biomass at day240 |
| maize.weather | Read weather data for the Maize model |
| maize_cir.model | The Maize model with additional state variable CumInt |
| maize_cir_rue.model | The Maize model with temperature dependent RUE and CumInt |
| maize_cir_rue_ear.model | The Maize model with temperature dependent RUE, CumInt and ear growth |
| mm.A.fct | Expanded leaf area function for Muchow et al. (1990) Maize model |
| mm.FAS.fct | Senescence function for Muchow et al. (1990) Maize model |
| mm.HI.fct | Harvest index function for Muchow et al. (1990) Maize model |
| mm.LN.fct | Leaf number function for Muchow et al. (1990) Maize model |
| param.rtriangle | Generate a random plan as a data frame. Columns are parameters. Values have triangle distribution |
| param.runif | Generate a random plan as a data frame. Columns are parameters. Values have uniform distribution |
| population.age.matrix.model | The PopulationAge model (Population Dynamics with Age Classes) - matrix form |
| population.age.model | The PopulationAge model (Population Dynamics with Age Classes) |
| population.age.model.ode | The PopulationAge model (Population Dynamics with Age Classes) - ode form |
| predator.prey.model | The PredatorPrey model (Predator-Prey Lotka-Volterra with logistic equation for prey) |
| q.arg.fast.runif | Build the q.arg argument for the FAST function (sensitivity analysis) |
| seedweight.data | Wheat grain weight measurements after anthesis |
| seedweight.model | The SeedWeight model |
| Sunflower_Phomopsis | Phomopsis stem canker observations for Sunflower |
| threshold.measures | Computation of threshold.measures |
| verhulst.model | The Verhulst (logistic) model - calculate daily values over designated time period |
| verhulst.update | The Verhulst (logistic) model - calculate change for one day |
| watbal.define.param | Define values of the parameters for the WaterBalance model |
| watbal.model | WaterBalance model - calculate soil water over designated time period |
| watbal.model.arid | WaterBalance model - Variant with another order of calculation and ARID index |
| watbal.simobsdata | Soil water content measurements and associated simulations with WaterBalance model |
| watbal.update | WaterBalance model - calculate change in soil water for one day |
| watbal.weather | Read weather data for the WaterBalance model (West of France Weather) |
| weather_EuropeEU | Weather serie for Europe EU from NASA POWER agroclimatology |
| weather_FranceWest | Weather series for western France from NASA POWER agroclimatology |
| weather_GNS | Weather series for Gainesville (FL, USA) years 1982 and 1983 |
| weather_SouthAsia | Weather series for southern Asia from NASA POWER agroclimatology |
| weed.define.param | Define parameter values of the Weed model |
| weed.model | The Weed model - calculate daily values over designated time period |
| weed.simule | Wrapper function to run the Weed model multiple times (for multiple sets of inputs) |
| weed.update | The Weed model - calculate change for one year |
| WheatYieldGreece | National Wheat Yield evolution for Greece from FAO |
| Wheat_GPC | Grain Protein Contents in Wheat Grains |
| zakoks.original.model | Classical SEIR model for plant diseases from Zadoks (1971) |
| ZeBook | Working with Dynamic Models for Agriculture and Environment |