pam (version 1.0.2)

vollenweider_modified: Vollenweider Model Modification

Description

This function adds parameters that were not originally included in the Vollenweider (1965) model, but were introduced by other models, and renames the parameters to a standardized one for all models.

Usage

vollenweider_modified(model_result)

Value

A modified model result as a list containing the following elements:

• etr_type: ETR Type based on the model result.

• etr_regression_data: Regression data with ETR predictions based on the fitted model.

• sdiff: The difference between observed and predicted ETR values.

• a: Obtained parameter a, here equal to etrmax_without_photoinhibition.

• b: Obtained parameter b, transferred as a.

• c: Obtained parameter c, here transferred as alpha.

• d: Obtained parameter d, here transferred as n.

• alpha: The initial slope of the light curve.

• beta: Not available, here set to NA_real_.

• etrmax_with_photoinhibition: The maximum electron transport rate with photoinhibition, transferred as popt.

• etrmax_without_photoinhibition: The maximum electron transport rate without photoinhibition, transferred as pmax.

• ik_with_photoinhibition: PAR where the transition point from light limitation to light saturation is achieved taking photoinhibition into account, transferred as iik.

• ik_without_photoinhibition: PAR where the transition point from light limitation to light saturation is achieved not taking photoinhibition into account, transferred as ik.

• im_with_photoinhibition: The PAR at which the maximum electron transport rate is achieved by taking photoinhibition into account, determined using the regression data from the model.

• w: Not available, here set to NA_real_.

• ib: Transferred unchanged as ib.

• etrmax_with_without_ratio: Ratio of etrmax_with_photoinhibition to etrmax_without_photoinhibition and ik_with_photoinhibition to ik_without_photoinhibition.

Arguments

model_result

A list containing the results of the model, including parameters such as pmax, alpha, and ik.

Details

A detailed documentation can be found under https://github.com/biotoolbox/pam?tab=readme-ov-file#vollenweider_modified

Examples

path <- file.path(system.file("extdata", package = "pam"), "20240925.csv")
data <- read_dual_pam_data(path)

result <- vollenweider_generate_regression_ETR_II(data)
modified_result <- vollenweider_modified(result)