powdR (version 1.3.0)

plot.powdRlm: Plotting elements of a powdRlm object

Description

plot.powdRlm is designed to provide easy, adaptable plots of full pattern summation outputs produced from fps_lm.

Usage

# S3 method for powdRlm
plot(x, wavelength, mode, xlim, group, show_excluded, interactive, ...)

Arguments

x

a powdRlm object

wavelength

One of "Cu", "Co" or a custom numeric value defining the wavelength (in Angstroms). Used to compute d-spacings.When "Cu" or "Co" are supplied, wavelengths of 1.54056 or 1.78897 are used, respectively.

mode

One of "fit", "residuals" or "both" defining whether to plot the fitted patterns, the residuals of the fit, or both, respectively. Default = "fit".

xlim

A numeric vector providing limits of the x-axis (E.g. c(10, 60)). Defaults to full x-axis unless specified.

group

A logical parameter used to specify whether the plotted data are grouped according to the phase name. Default = FALSE.

show_excluded

A logical value specifying whether the areas excluded from the fitting are identified in the plot as grey rectangles. Default = TRUE.

interactive

logical. If TRUE then the output will be an interactive ggplotly object. If FALSE then the output will be a ggplot object.

...

other arguments

Details

When seeking to inspect the results from full pattern summation, interactive plots are particularly useful and can be specified with the interactive argument.

Examples

# NOT RUN {
data(rockjock)
data(rockjock_mixtures)

#Compute the PCA and loadings
x1 <- xrpd_pca(rockjock_mixtures,
               mean_center = TRUE,
               bin_size = 1,
               root_transform = 1)

# }
# NOT RUN {
fps_lm_out <- fps_lm(rockjock,
                     smpl = data.frame("x" = x1$loadings$tth,
                                       "y" = x1$loadings$Dim.1),
                     refs = rockjock$phases$phase_id,
                     std = "QUARTZ",
                     align = 0.3,
                     p = 0.01)

plot(fps_lm_out,
     wavelength = "Cu",
     interactive = TRUE,
     group = TRUE)

# }