set.initvals {rbacon} | R Documentation |
Set initial values for the Bacon MCMC run.
Description
Select initial values th0 and th1 for a Bacon MCMC run and write them into a file that can be read by Bacon.
Usage
set.initvals(set = get("info"), core = set$core, values = c(), click = 1)
Arguments
set |
Detailed information of the current run, stored within this session's memory as variable |
core |
The name of the core for which a bacon.init file needs to be made |
values |
use this if you wish to provide the values (2 rows with starting age, accumulation rates for each model section, and memory parameter w). |
click |
use this if you wish to use the cursor to manually select age-depth points from the current graphic device. This is the default option. Right click once you have selected all datapoints, or provide the number of expected datapoints as a value (e.g., |
Details
By default, the initial MCMC values th0 and th1 of the Bacon age-depth model (upper ages and accumulation rate for each model section) are estimated randomly. Since version 3.1.0, these starting values can also be provided in a file with extension _bacon.init, placed within the core's folder. This file will need to have two rows, each for one of the two initial sets of parameters required (the t-walk requires two starting estimates for all MCMC parameters). If such a file is found (and correctly formatted), Bacon will use the values within this file as starting points for the MCMC run.
Value
A .bacon.init file
Author(s)
Maarten Blaauw, J. Andres Christen