pam (version 2.0.2)

vollenweider_generate_regression_ETR_II: Vollenweider Regression for ETR II

Description

Fits the Vollenweider (1965) regression model using original naming conventions from the publication.

Usage

vollenweider_generate_regression_ETR_II(
  data,
  pmax_start_value = vollenweider_default_start_value_pmax,
  a_start_value = vollenweider_default_start_value_a,
  alpha_start_value = vollenweider_default_start_value_alpha,
  n_start_value = vollenweider_default_start_value_n
)

Value

A list containing:

• etr_regression_data: Predicted ETR values.

• residual_sum_of_squares: Difference between observed and predicted ETR values, expressed as the sum of squared residuals.

• root_mean_squared_error: Difference between observed and predicted ETR values, expressed as the root mean squared error.

• relative_root_mean_squared_error: Difference between observed and predicted ETR values, expressed as the relative root mean squared error, normalized by the mean.

• pmax: Maximum electron transport rate (\(p_{max}\)).

• a: Parameter \(a\).

• alpha: Parameter \(\alpha\).

• n: Parameter \(n\).

• popt: Maximum electron transport rate with photoinhibition (\(p_{opt}\)).

• ik: Transition point from light limitation to light saturation without photoinhibition (\(I_k\)).

• iik: Transition point from light limitation to light saturation with photoinhibition (\(I_k^\prime\)).

• pmax_popt_and_ik_iik_ratio: Ratio of \(p_{max}\) to \(p_{opt}\) and \(I_k\) to \(I_k^\prime\).

Arguments

data

A data.table from read function (e.g.read_dual_pam_data).

pmax_start_value

Numeric. Initial value for \(p_{max}\). Default: pmax_start_values_vollenweider_default.

a_start_value

Numeric. Initial value for \(a\). Default: a_start_values_vollenweider_default.

alpha_start_value

Numeric. Initial value for \(\alpha\). Default: alpha_start_values_vollenweider_default.

n_start_value

Numeric. Initial value for \(n\). Default: n_start_values_vollenweider_default.

Details

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

References

Vollenweider, R. A. (1965). Calculation models of photosynthesis-depth curves and some implications regarding day rate estimates in primary production measurements, p. 427-457. In C. R. Goldman [ed.], Primary Productivity in Aquatic Environments. Mem. Ist. Ital. Idrobiol., 18 Suppl., University of California Press, Berkeley.

Examples

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

result <- vollenweider_generate_regression_ETR_II(data)