plotProfiles: Plot dynamic simulation output as vertical profiles
In dkneis/diatools: Utilities for Diagenetic Modeling

Description Usage Arguments Value Note Author(s)

Plots the output of a dynamic 1D diagenetic model as vertical profiles.

plotProfiles(obj, item, obs, xlab = "", ylab = "depth", xlim = NULL,
  ylim = NULL, pos = "top", timeconv = function(x) {     ISOdatetime(1970,
  1, 1, 0, 0, 0) + x }, width = 4, height = 4, pointsize = 10,
  dir = ".", fmt = "svg", prefix = "profile", replace = TRUE, ...)

`obj`	Object created with `sim1D.create`.
`item`	Name of a state variable or process (character string).
`obs`	Data frame of observations. See notes below.
`xlab`	Label for the time axis (x).
`ylab`	Label for the depth axis (y).
`xlim`	Limits for the value axis (x). Computed if `NULL`.
`ylim`	Limits for the depth axis (y). Computed if `NULL`.
`pos`	Keyword specifying the position of the legend.
`timeconv`	A function to convert numeric times to class `POSIXct`.
`width`	Plot width in inch.
`height`	Plot height in inch.
`pointsize`	Font size.
`dir`	Output directory for generated graphics.
`fmt`	Graphics format, either 'svg' or 'pdf'.
`prefix`	Prefix put before the value of `name` when constructing file names.
`replace`	If `FALSE` existing output files result in an error.
`...`	Additional arguments to be passed to `legend`.

A vector holding the names of the generated graphics files.

The data frame of observations passed as obs needs to have 3 columns named 'time', 'depth', and 'value'. If the times of observation do not match exactly with the model output, data for the nearest time points available in dyn will be plotted. Data in the 'time' column must be of the same type as the return value of timeconv. It is OK if the 'depth' and 'value' columns contain NA only and in that case, just the simulated data are plotted.

David Kneis david.kneis@tu-dresden.de

dkneis/diatools documentation built on May 15, 2019, 9:12 a.m.