Add dated depths to plots, e.g. to show dates that weren't used in the age-depth model
add.dates(
mn,
sdev,
depth,
cc = 1,
set = get("info"),
above = 1e-06,
postbomb = 0,
normal = TRUE,
delta.R = set$delta.R,
delta.STD = set$delta.STD,
t.a = set$t.a,
t.b = set$t.b,
date.res = 100,
height = 0.1,
calheight = 1,
agesteps = 1,
cutoff = 0.005,
col = rgb(1, 0, 0, 0.5),
border = rgb(1, 0, 0, 0.5),
rotate.axes = FALSE,
mirror = TRUE,
up = TRUE,
BCAD = FALSE,
pch = 4,
cc.dir = c()
)A date's distribution, added to an age-depth plot.
Reported mean of the date. Can be multiple dates. Negative numbers indicate postbomb dates (if cc > 0).
Reported error of the date. Can be multiple dates.
Depth of the date.
The calibration curve to use: cc=1 for IntCal20 (northern hemisphere terrestrial), cc=2 for Marine20 (marine), cc=0 for none (dates that are already on the cal BP scale).
Detailed information of the current run, stored within this session's memory as variable info.
Threshold for plotting of probability values. Defaults to above=1e-3.
Use a postbomb curve for negative (i.e. postbomb) 14C ages. 0 = none, 1 = NH1, 2 = NH2, 3 = NH3, 4 = SH1-2, 5 = SH3
By default, Bacon uses the t-distribution (Christen and Perez 2009) to treat the dates. Use normal=TRUE to use the normal/Gaussian distribution. This will generally give higher weight to the dates.
Mean of core-wide age offsets (e.g., regional marine offsets).
Error of core-wide age offsets (e.g., regional marine offsets).
The dates are treated using the t distribution by default (normal=FALSE).
The t model has two parameters, t.a and t.b, set at 3 and 4 by default (see Christen and Perez, 2010).
If you want to assign narrower error distributions (more closely resembling the normal distribution), set t.a and t.b at for example 33 and 34 respectively (e.g., for specific dates in your .csv file).
For symmetry reasons, t.a must always be equal to t.b-1.
The dates are treated using the t distribution by default (normal=FALSE).
The t-distribution has two parameters, t.a and t.b, set at 3 and 4 by default (see Christen and Perez, 2010).
If you want to assign narrower error distributions (more closely resembling the normal distribution), set t.a and t.b at for example 33 and 34 respectively (e.g., for specific dates in your .csv file).
For symmetry reasons, t.a must always be equal to t.b-1.
Resolution of the date's distribution. Defaults to date.res=100.
The heights of the distributions of the dates. See also normalise.dists.
Multiplier for the heights of the distributions of dates on the calendar scale. Defaults to calheight=1.
Step size for age units of the distribution. Default agesteps=1.
Avoid plotting very low probabilities of date distributions (default cutoff=0.005).
The colour of the ranges of the date. Default is semi-transparent red: col=rgb(1,0,0,.5).
The colours of the borders of the date. Default is semi-transparent red: border=rgb(1,0,0,0.5).
The default of plotting age on the horizontal axis and event probability on the vertical one can be changed with rotate.axes=TRUE.
Plot the dates as 'blobs'. Set to mirror=FALSE to plot simple distributions.
Directions of distributions if they are plotted non-mirrored. Default up=TRUE.
The calendar scale of graphs is in cal BP by default, but can be changed to BC/AD using BCAD=TRUE.
The shape of any marker to be added to the date. Defaults to a cross, pch=4. To leave empty, use pch=NA.
Directory where the calibration curves for C14 dates cc are located. By default cc.dir=c().
Maarten Blaauw, J. Andres Christen
Sometimes it is useful to add additional dating information to age-depth plots, e.g., to show outliers or how dates calibrate with different estimated offsets. Calls rice's draw.dates function.
# \donttest{
Bacon(run=FALSE, coredir=tempfile())
agedepth()
add.dates(5000, 100, 60)
# }
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