walsby_modified: Walsby Model Modification

In pam: Fast and Efficient Processing of PAM Data

Walsby Model Modification

Description

Enhances the Walsby (1997) model by adding parameters from other models and standardizing parameter names.

Usage

walsby_modified(model_result)

Arguments

model_result

A list of model results including etr_max, alpha, and beta.

Details

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

Value

A list containing:

• 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, equal to etrmax_without_photoinhibition.

• b: Obtained parameter b, equal to alpha.

• c: Obtained parameter c, equal to beta.

• d: Not available, set to NA_real_.

• alpha: The initial slope of the light curve, transferred unchanged as alpha.

• beta: The photoinhibition of the light curve, transferred unchanged as beta.

• etrmax_with_photoinhibition: The maximum electron transport rate with photoinhibition.

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

• ik_with_photoinhibition: PAR where the transition point from light limitation to light saturation is achieved with photoinhibition.

• ik_without_photoinhibition: PAR where the transition point from light limitation to light saturation is achieved without photoinhibition.

• im_with_photoinhibition: PAR at the maximum ETR with photoinhibition.

• w: Not available, set to NA_real_.

• ib: Not available, set to NA_real_.

• etrmax_with_without_ratio: Ratio of etrmax_with_photoinhibition to etrmax_without_photoinhibition.

Examples

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

result <- walsby_generate_regression_ETR_II(data)
modified_result <- walsby_modified(result)

pam documentation built on Aug. 27, 2025, 5:10 p.m.