plot_data {MixSIAR}

Plot biotracer data

Description

plot_data creates plot(s) of the biotracer data and saves the plot(s) to file(s) in the working directory. All 3 required data files must have been loaded by load_mix_data, load_source_data, and load_discr_data. Behavior depends on the number of tracers:

• 1 tracer: calls plot_data_one_iso to create a 1-D plot.

• 2 tracers: calls plot_data_two_iso to create a biplot.

• >2 tracers: calls plot_data_two_iso in a loop to create biplots for each pairwise combination of biotracers.

Usage

plot_data(
  filename,
  plot_save_pdf,
  plot_save_png,
  mix,
  source,
  discr,
  return_obj = FALSE
)

Arguments

filename

name of the plot file(s) to save (e.g. "isospace_plot")

plot_save_pdf

T/F, save the plot(s) as a pdf?

plot_save_png

T/F, save the plot(s) as a png?

mix

output from load_mix_data

source

output from load_source_data

discr

output from load_discr_data

return_obj

T/F, whether or not to return ggplot object for further modification, defaults to F

Details

An important detail is that plot_data_two_iso and plot_data_one_iso plot the raw mix data and add the TDF to the source data, since this is the polygon that the mixing model uses to determine proportions. The plotted source means are:

\mu_source + \mu_discr

The source error bars are +/- 1 standard deviation, calculated as a combination of source and TDF variances:

\sqrt{\sigma^2_source + \sigma^2_discr}

plot_data looks for 'C', 'N', 'S', and 'O' in the biotracer column headers and assumes they are stable isotopes, labeling the axes with, e.g., expression(paste(delta^13, "C (u2030)",sep="")).

See Also

plot_data_two_iso, plot_data_one_iso