plot_DetPlot: Create De(t) plot

In Luminescence: Comprehensive Luminescence Dating Data Analysis

Create De(t) plot

Description

Plots the equivalent dose (D_e) in dependency of the chosen signal integral (cf. Bailey et al., 2003). The function is simply passing several arguments to the function plot and the used analysis functions and runs it in a loop. Example: legend.pos for legend position, legend for legend text.

Usage

plot_DetPlot(
  object,
  signal.integral.min,
  signal.integral.max,
  background.integral.min,
  background.integral.max,
  method = "shift",
  signal_integral.seq = NULL,
  analyse_function = "analyse_SAR.CWOSL",
  analyse_function.control = list(),
  n.channels = NULL,
  show_ShineDownCurve = TRUE,
  respect_RC.Status = FALSE,
  multicore = TRUE,
  verbose = TRUE,
  plot = TRUE,
  ...
)

Arguments

object	RLum.Analysis (required): input object containing data for analysis Can be provided as a list of such objects.
signal.integral.min	integer (required): lower bound of the signal integral.
signal.integral.max	integer (required): upper bound of the signal integral.
background.integral.min	integer (required): lower bound of the background integral.
background.integral.max	integer (required): upper bound of the background integral.
method	character (with default): method applied for constructing the De(t) plot. shift (the default): the chosen signal integral is shifted the shine down curve, expansion: the chosen signal integral is expanded each time by its length
signal_integral.seq	numeric (optional): argument to provide an own signal integral sequence for constructing the De(t) plot
analyse_function	character (with default): name of the analyse function to be called. Supported functions are: analyse_SAR.CWOSL, analyse_pIRIRSequence
analyse_function.control	list (optional): selected arguments to be passed to the supported analyse functions (analyse_SAR.CWOSL, analyse_pIRIRSequence). The arguments must be provided as named list, e.g., ⁠list(dose.points = c(0,10,20,30,0,10)⁠ will set the regeneration dose points.
n.channels	integer (optional): number of channels used for the De(t) plot. If nothing is provided all De-values are calculated and plotted until the start of the background integral.
show_ShineDownCurve	logical (with default): enables or disables shine down curve in the plot output
respect_RC.Status	logical (with default): remove De-values with 'FAILED' RC.Status from the plot (cf. analyse_SAR.CWOSL and analyse_pIRIRSequence)
multicore	logical (with default) : enables/disables multi core calculation if object is a list of RLum.Analysis objects. Can be an integer specifying the number of cores
verbose	logical (with default): enables or disables terminal feedback
plot	logical (with default): enables/disables plot output Disabling the plot is useful in cases where the output need to be processed differently.
...	further arguments and graphical parameters passed to plot.default, analyse_SAR.CWOSL and analyse_pIRIRSequence (see details for further information). Plot control parameters are: ylim, xlim, ylab, xlab, main, pch, mtext, cex, legend, legend.text, legend.pos

Details

method

The original method presented by Bailey et al., 2003 shifted the signal integrals and slightly extended them accounting for changes in the counting statistics. Example: c(1:3, 3:5, 5:7). However, here also another method is provided allowing to expand the signal integral by consecutively expanding the integral by its chosen length. Example: c(1:3, 1:5, 1:7)

Note that in both cases the integral limits are overlap. The finally applied limits are part of the function output.

analyse_function.control

The argument analyse_function.control currently supports the following arguments sequence.structure, dose.points, mtext.outer, fit.method, fit.force_through_origin, plot, plot.single

Value

A plot and an RLum.Results object with the produced D_e values

⁠@data⁠:

Object	Type	Description
De.values	data.frame	table with De values
signal_integral.seq	numeric	integral sequence used for the calculation

⁠@info⁠:

Object	Type	Description
call	call	the original function call

Function version

0.1.7

How to cite

Kreutzer, S., 2024. plot_DetPlot(): Create De(t) plot. Function version 0.1.7. In: Kreutzer, S., Burow, C., Dietze, M., Fuchs, M.C., Schmidt, C., Fischer, M., Friedrich, J., Mercier, N., Philippe, A., Riedesel, S., Autzen, M., Mittelstrass, D., Gray, H.J., Galharret, J., 2024. Luminescence: Comprehensive Luminescence Dating Data Analysis. R package version 0.9.24. https://CRAN.R-project.org/package=Luminescence

Note

The entire analysis is based on the used analysis functions, namely analyse_SAR.CWOSL and analyse_pIRIRSequence. However, the integrity checks of this function are not that thoughtful as in these functions itself. It means, that every sequence should be checked carefully before running long calculations using several hundreds of channels.

Author(s)

Sebastian Kreutzer, Institute of Geography, Ruprecht-Karl University of Heidelberg (Germany) , RLum Developer Team

References

Bailey, R.M., Singarayer, J.S., Ward, S., Stokes, S., 2003. Identification of partial resetting using De as a function of illumination time. Radiation Measurements 37, 511-518. doi:10.1016/S1350-4487(03)00063-5

See Also

plot, analyse_SAR.CWOSL, analyse_pIRIRSequence

Examples

## Not run: 
##load data
##ExampleData.BINfileData contains two BINfileData objects
##CWOSL.SAR.Data and TL.SAR.Data
data(ExampleData.BINfileData, envir = environment())

##transform the values from the first position in a RLum.Analysis object
object <- Risoe.BINfileData2RLum.Analysis(CWOSL.SAR.Data, pos=1)

plot_DetPlot(
  object,
  signal.integral.min = 1,
  signal.integral.max = 3,
  background.integral.min = 900,
  background.integral.max = 1000,
  n.channels = 5)

## End(Not run)

Luminescence documentation built on June 22, 2024, 9:54 a.m.