plot.BchronCalibratedDates: Plot calibrated dates from a BchronCalibrate run

In Bchron: Radiocarbon Dating, Age-Depth Modelling, Relative Sea Level Rate Estimation, and Non-Parametric Phase Modelling

Description

Plots calibrated radiocarbon dates from a BchronCalibrate run. Has options to plot on a position (usually depth) scale if supplied with the original run

Usage

## S3 method for class 'BchronCalibratedDates'
plot(
  x,
  date = NULL,
  withPositions = ifelse(length(x) > 1 & !is.null(x[[1]]$positions) & !includeCal,
    TRUE, FALSE),
  includeCal = FALSE,
  dateHeight = 100,
  dateLabels = TRUE,
  dateLabelSize = 2,
  nudgeX = 0,
  nudgeY = 0,
  fillCol = rgb(47/255, 79/255, 79/255, 0.5),
  withHDR = TRUE,
  ageScale = c("bp", "bc", "b2k"),
  scaleReverse = TRUE,
  pathToCalCurves = system.file("data", package = "Bchron"),
  ...
)

Arguments

x	Output from BchronCalibrate
date	Either numbers or date names to plot (only used if multiple dates have been calibrated)
withPositions	Whether to plot with positions (i.e. using the position values as the y axis). By default TRUE if x has more than one date and contains positions
includeCal	Whether to plot the date alongside the calibration curve (with 95% uncertainty bands) and the normally distributed uncalibrated date.
dateHeight	The height of the dates in the plot in the same units as the position values. Only relevant if withPositions=TRUE.
dateLabels	Whether to add the names of the dates to the left of them. Default TRUE
dateLabelSize	Size of the date labels
nudgeX	The amount to move the date labels in the x direction. Can be negative. See geom_text for details
nudgeY	The amount to move the date labels in the y direction. Can be negative. See geom_text for details
fillCol	A colour to fill the date densities when withPositions is TRUE, or HDR ranges when it is FALSE
withHDR	Whether to plot the 95% highest density region values
ageScale	Either bp for years before present, bc for years BC/AD (BC will be negative), b2k for years before 2000. Others not supported (yet).
scaleReverse	Whether to reverse the x-axis scale. Defaults to TRUE which works best for dates presented in e.g. years BP
pathToCalCurves	The Bchron path to calibration curves. Defaults to the package location might need to be set to another folder if user defined calibration curves are being used
...	Other arguments to plot (currently ignored)

Details

These plots are intended to be pretty basic and used simply for quick information. Users are encouraged to learn the R plotting features to produce publication quality graphics

See Also

BchronCalibrate, Bchronology, BchronRSL, BchronDensity, BchronDensityFast

Bchron documentation built on June 10, 2021, 9:10 a.m.