metabodecon (version 1.6.2)

calculate_lorentz_curves: Calculate lorentz curves for each analyzed spectrum

Description

Helper function of plot_lorentz_curves_save_as_png(). Should not be called directly by the user.

Calculates the lorentz curves of each investigated spectrum.

This function has been deprecated with metabodecon version v1.4.3 and will be removed with version 2.0.0.

Usage

calculate_lorentz_curves(deconv_result, number_of_files = NA)

Value

If deconv_result holds the result of a single deconvolution, a matrix containing the generated Lorentz curves is returned, where each row depicts one Lorentz curve. If deconv_result is a list of deconvoluted spectra, a list of such matrices is returned.

Arguments

deconv_result

A list as returned by generate_lorentz_curves() or MetaboDecon1D.

number_of_files

Number of spectra to analyze

Author

2020-2021 Martina Haeckl: initial version.
2024-2025 Tobias Schmidt: Minor updates to pass CRAN checks

See Also

MetaboDecon1D(), plot_triplets(), plot_lorentz_curves_save_as_png(), plot_spectrum_superposition_save_as_png()

Examples

## -~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-
## Deconvolute the spectra in folder "bruker/sim_subset" into a list of
## Lorentz Curves (specified via the parameters A, lambda and x_0).
## -~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-
decons <- generate_lorentz_curves_sim(sim[1:2])
decon0 <- decons[[1]]

## -~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-
## Calculate the corresponding y values at each ppm value for each Lorentz
## Curve. I.e. you get a matrix of dimension n x m for each deconvolution,
## where n is the number of Lorentz Curves and m is the number of ppm values.
## -~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-
yy <- calculate_lorentz_curves(decons)
y1 <- yy[[1]]
dim(y1)

## -~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-
## Visualize the 5th, 9th and 11th Lorentz curve.
## -~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-~-
nrs <- c(5, 9, 11)
col <- c("red", "blue", "orange")
desc <- paste("Lorentz curve", nrs)
plot(decon0$x_values_ppm, decon0$y_values, type = "l", lty = 2)
for (i in 1:3) lines(decon0$x_values_ppm, y1[nrs[i], ], col = col[i])
legend("topright", legend = desc, col = col, lty = 1)