calib.plot: Plot the dates

In rbacon: Age-Depth Modelling using Bayesian Statistics

Plot the dates

Description

Produce a plot of the dated depths and their dates

Usage

calib.plot(
  set = get("info"),
  dets = set$dets,
  accordion = c(),
  BCAD = set$BCAD,
  cc = set$cc,
  rotate.axes = FALSE,
  rev.d = FALSE,
  rev.age = FALSE,
  rev.yr = rev.age,
  age.lim = c(),
  yr.lim = age.lim,
  date.res = 100,
  d.lab = c(),
  age.lab = c(),
  yr.lab = age.lab,
  height = 1,
  calheight = 1,
  mirror = TRUE,
  up = TRUE,
  cutoff = 0.1,
  C14.col = rgb(0, 0, 1, 0.5),
  C14.border = rgb(0, 0, 1, 0.75),
  cal.col = rgb(0, 0.5, 0.5, 0.5),
  cal.border = rgb(0, 0.5, 0.5, 0.75),
  dates.col = c(),
  slump.col = grey(0.8),
  new.plot = TRUE,
  plot.dists = TRUE,
  same.heights = FALSE
)

Arguments

set	Detailed information of the current run, stored within this session's memory as variable info.
dets	The set of determinations to be plotted.
accordion	If depths have to be squeezed/stretched, the parameters can be set here. Defaults to being empty, but requires 2 parameters if active, e.g., accordion=c(10,20).
BCAD	The calendar scale of graphs is in cal BP by default, but can be changed to BC/AD using BCAD=TRUE.
cc	Calibration curve to be used (defaults to info$cc)
rotate.axes	The default of plotting age on the horizontal axis and event probability on the vertical one can be changed with rotate.axes=TRUE.
rev.d	The direction of the depth axis can be reversed from the default (rev.d=TRUE).
rev.age	The direction of the calendar age axis can be reversed from the default (rev.age=TRUE)
rev.yr	Deprecated - use rev.age instead
age.lim	Minimum and maximum calendar age ranges, calculated automatically by default (age.lim=c()).
yr.lim	Deprecated - use age.lim instead
date.res	Date distributions are plotted using date.res=100 points by default.
d.lab	The labels for the depth axis. Default d.lab="Depth (cm)".
age.lab	The labels for the calendar axis (default yr.lab="cal BP" or "BC/AD" if BCAD=TRUE).
yr.lab	Deprecated - use age.lab instead
height	The heights of the distributions of the dates. See also normalise.dists.
calheight	Multiplier for the heights of the distributions of dates on the calendar scale. Defaults to calheight=1.
mirror	Plot the dates as 'blobs'. Set to mirror=FALSE to plot simple distributions.
up	Directions of distributions if they are plotted non-mirrored. Default up=TRUE.
cutoff	Avoid plotting very low probabilities of date distributions (default cutoff=0.1).
C14.col	Colour of the calibrated distributions of the dates. Default is semi-transparent blue: rgb(0,0,1,.35).
C14.border	Colours of the borders of calibrated 14C dates. Default is transparent dark blue: cal.col
cal.col	Colour of the non-14C dates in the age-depth plot: default semi-transparent blue-green: rgb(0,.5,.5,.35).
cal.border	Colour of the of the border of non-14C dates in the age-depth plot: default semi-transparent dark blue-green: rgb(0,.5,.5,.5).
dates.col	As an alternative to colouring dates based on whether they are 14C or not, sets of dates can be coloured as, e.g., dates.col=colours()[2:100].
slump.col	Colour of slumps. Defaults to slump.col=grey(0.8).
new.plot	Start a new plot (new.plot=TRUE) or plot over an existing plot (new.plot=FALSE).
plot.dists	Plot the distributions of the dates (default plot.dists=TRUE).
same.heights	Plot the distributions of the dates all at the same maximum height (default same.height=FALSE), which instead normalises the distributions (all have an area of 1).

Details

This function is generally called internally to produce the age-depth graph. It can be used to produce custom-built graphs.

Value

NA

Author(s)

Maarten Blaauw, J. Andres Christen

Examples

  Bacon(run=FALSE, coredir=tempfile())
  calib.plot()

rbacon documentation built on Sept. 30, 2024, 9:40 a.m.