accrates.core: Provide a summary of the estimated accumulation rates for a...

In rbacon: Age-Depth Modelling using Bayesian Statistics

Provide a summary of the estimated accumulation rates for a range of core depths

Description

Obtain a summary (95% range, 68% range, median, mean) of the accumulation rates (in years per cm, so actually sedimentation times) as estimated by the MCMC iterations for a range of depths of a core, and optionally write this as a file to the core directory (ending in '_accrates.txt').

Usage

accrates.core(
  dseq = c(),
  set = get("info"),
  cmyr = FALSE,
  na.rm = FALSE,
  probs = c(0.025, 0.16, 0.84, 0.975, 0.5),
  round = 2,
  write = TRUE,
  sep = "\t"
)

Arguments

dseq	The sequence of depths for which accumulation rates need to be returned. Defaults to whatever info$dseq is, which most often is a sequence from the top to the bottom of the core at 1 cm increments.
set	Detailed information of the current run, stored within this session's memory as variable info.
cmyr	Accumulation rates can be calculated in cm/year or year/cm. By default cmyr=FALSE and accumulation rates are calculated in year per cm.
na.rm	Remove NA entries. These are NOT removed by default, so that always the same amount of iterations is returned.
probs	The probability ranges to be returned. Defaults to the minima and maxima of the 95% and 68% ranges, as well as the median: probs=c(.025, .16, .84, .975, .5).
round	The number of decimals to report. Defaults to round=2.
write	Whether or not to write the summary to a file, in the core's directory and ending in '_accrates.txt'.
sep	Character to separate the entries within the file. Defaults to a tab, sep="\t".

Value

A summary of the estimated accumulation rate for all selected depths: minimum of the 95% interval, minimum of the 68% interval, maximum of the 68% interval, maximum of the 95% interval, median (i.e., 50%) and mean. This is optionally written to a file in the core directory.

Author(s)

Maarten Blaauw

Examples

## Not run: 
  Bacon(run=FALSE, coredir=tempfile())
  agedepth(yr.res=50, d.res=50, d.by=10)
  myaccrates <- accrates.core()

## End(Not run)

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