mappestRisk (version 0.1.2)

plot_devmodels: Plot fitted thermal performance curves

Description

Plot the predicted development rates across temperatures based on fitted Thermal Performance Curves (TPCs) for one or several models displayed in facets.

Usage

plot_devmodels(
  temp = NULL,
  dev_rate = NULL,
  fitted_parameters = NULL,
  species = NULL,
  life_stage = NULL
)

Value

A plot with predicted values (development rate) across temperatures for models that have adequately converged using fit_devmodels() function. It's a ggplot object, which can be assigned to a user-defined object.

Arguments

temp

a vector of temperatures used in the experiment. It should have at least four different temperatures and must contain only numbers without any missing values.

dev_rate

a vector of estimated development rates corresponding to each temperature. These rates are calculated as the inverse of the number of days to complete the transition from the beginning of a certain life stage to the beginning of the following at each temperature. It must be numeric and of the same length as temp.

fitted_parameters

a tibble obtained with fit_devmodels(), including parameter names, estimates, standard errors, AICs, and nls objects (fitted_models) using the nls.multstart::nls_multstart() approach.

species

optional a string of the target species that will constitute the plot title. Must be of type "character".

life_stage

optional a string of the target life stage that will constitute the plot subtitle. Must be of type "character".

References

Angilletta, M.J., (2006). Estimating and comparing thermal performance curves. J. Therm. Biol. 31: 541-545. (for model selection in TPC framework)

Padfield, D., O'Sullivan, H. and Pawar, S. (2021). rTPC and nls.multstart: A new pipeline to fit thermal performance curves in R. Methods Ecol Evol. 12: 1138-1143.

Rebaudo, F., Struelens, Q. and Dangles, O. (2018). Modelling temperature-dependent development rate and phenology in arthropods: The devRate package for R. Methods Ecol Evol. 9: 1144-1150.

Satar, S. and Yokomi, R. (2002). Effect of temperature and host on development of Brachycaudus schwartzi (Homoptera: Aphididae). Ann. Entomol. Soc. Am. 95: 597-602.

See Also

fit_devmodels() for fitting Thermal Performance Curves to development rate data, which is in turn based on nls.multstart::nls_multstart().

Examples

data("aphid")

fitted_tpcs <- fit_devmodels(temp = aphid$temperature,
                             dev_rate = aphid$rate_value,
                             model_name = c("lactin2", "briere2", "mod_weibull"))

plot_devmodels(temp = aphid$temperature,
               dev_rate = aphid$rate_value,
               fitted_parameters = fitted_tpcs,
               species = "Brachycaudus schwartzi",
               life_stage = "Nymphs")